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Chen CK, Chang YM, Jiang TX, Yue Z, Liu TY, Lu J, Yu Z, Lin JJ, Vu TD, Huang TY, Harn HIC, Ng CS, Wu P, Chuong CM, Li WH. Conserved regulatory switches for the transition from natal down to juvenile feather in birds. Nat Commun 2024; 15:4174. [PMID: 38755126 PMCID: PMC11099144 DOI: 10.1038/s41467-024-48303-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/24/2023] [Accepted: 04/24/2024] [Indexed: 05/18/2024] Open
Abstract
The transition from natal downs for heat conservation to juvenile feathers for simple flight is a remarkable environmental adaptation process in avian evolution. However, the underlying epigenetic mechanism for this primary feather transition is mostly unknown. Here we conducted time-ordered gene co-expression network construction, epigenetic analysis, and functional perturbations in developing feather follicles to elucidate four downy-juvenile feather transition events. We report that extracellular matrix reorganization leads to peripheral pulp formation, which mediates epithelial-mesenchymal interactions for branching morphogenesis. α-SMA (ACTA2) compartmentalizes dermal papilla stem cells for feather renewal cycling. LEF1 works as a key hub of Wnt signaling to build rachis and converts radial downy to bilateral symmetry. Novel usage of scale keratins strengthens feather sheath with SOX14 as the epigenetic regulator. We show that this primary feather transition is largely conserved in chicken (precocial) and zebra finch (altricial) and discuss the possibility that this evolutionary adaptation process started in feathered dinosaurs.
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Affiliation(s)
- Chih-Kuan Chen
- Department of Pathology, Keck School of Medicine, University of Southern California, Los Angeles, CA, USA
- Biodiversity Research Center, Academia Sinica, Taipei, Taiwan
- The iEGG and Animal Biotechnology Center, National Chung Hsing University, Taichung, Taiwan
- Rong Hsing Research Center for Translational Medicine, National Chung Hsing University, Taichung, Taiwan
| | - Yao-Ming Chang
- Institute of Biomedical Sciences, Academia Sinica, Taipei, Taiwan
| | - Ting-Xin Jiang
- Department of Pathology, Keck School of Medicine, University of Southern California, Los Angeles, CA, USA
| | - ZhiCao Yue
- Department of Cell Biology and Medical Genetics, Shenzhen University Medical School, Shenzhen, Guangdong, China
- International Cancer Center, Shenzhen University Medical School, Shenzhen, Guangdong, China
- Guangdong Key Laboratory of Genome Instability and Human Disease Prevention, Shenzhen University Medical School, Shenzhen, Guangdong, China
| | - Tzu-Yu Liu
- Department of Pathology, Keck School of Medicine, University of Southern California, Los Angeles, CA, USA
- Department of Life Sciences, National Cheng Kung University, Tainan, Taiwan
| | - Jiayi Lu
- Department of Pathology, Keck School of Medicine, University of Southern California, Los Angeles, CA, USA
| | - Zhou Yu
- Department of Pathology, Keck School of Medicine, University of Southern California, Los Angeles, CA, USA
| | - Jinn-Jy Lin
- National Applied Research Laboratories, National Center for High-performance Computing, Hsinchu, Taiwan
| | - Trieu-Duc Vu
- Michigan Neuroscience Institute, University of Michigan School of Medicine, Ann Arbor, MI, USA
| | - Tao-Yu Huang
- Biodiversity Research Center, Academia Sinica, Taipei, Taiwan
| | - Hans I-Chen Harn
- Department of Pathology, Keck School of Medicine, University of Southern California, Los Angeles, CA, USA
| | - Chen Siang Ng
- The iEGG and Animal Biotechnology Center, National Chung Hsing University, Taichung, Taiwan
- Institute of Molecular and Cellular Biology, National Tsing Hua University, Hsinchu, Taiwan
- Department of Life Science, National Tsing Hua University, Hsinchu, Taiwan
- Bioresource Conservation Research Center, National Tsing Hua University, Hsinchu, Taiwan
| | - Ping Wu
- Department of Pathology, Keck School of Medicine, University of Southern California, Los Angeles, CA, USA
| | - Cheng-Ming Chuong
- Department of Pathology, Keck School of Medicine, University of Southern California, Los Angeles, CA, USA.
| | - Wen-Hsiung Li
- Biodiversity Research Center, Academia Sinica, Taipei, Taiwan.
- Department of Ecology and Evolution, University of Chicago, Chicago, IL, USA.
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2
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Rubio CA, Vieth M, Lang-Schwarz C. Dysplastic crypt-rings in tandem: A novel histologic parameter in tubular adenomas. Ann Diagn Pathol 2024; 72:152322. [PMID: 38705087 DOI: 10.1016/j.anndiagpath.2024.152322] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2024] [Accepted: 04/29/2024] [Indexed: 05/07/2024]
Abstract
Descriptions of the various dysplastic crypt phenotypes occurring in TA have remained unattended in the literature. Recently, new crypt-phenotypes, characterized by crypt rings in tandem (CRT), and by dysplastic crypt rings in tandem (DCRT) were described in IBD, and in in IBD-associated dysplasia, respectively. Here, we report the occurrence of DCRT in 40.4 % (n = 59) out of 146 consecutive tubular adenomas of the colorectum (TA). The number of DCRT varied: 10 TA had two DCRT, seven TA had three DCRT, two TA, four DCRT and the remaining two TA had ≥ five DCRT. The frequency of DCRT was influenced by TA-size; larger TA (≥ 5 mm) had significantly more DCRT than smaller TA (<5 mm). Conversely, the frequency of TA with DCRT was not influenced by age, gender, or localization. Since only 1 or 2 sections were available per TA, the number of DCRT in the entire TA should be higher than those shown in Results. Historical controls in human and rodent normal colorectum showed no CRT. Moreover, DCRT were not found in 781 historical non-polypoid colorectal adenomas. The present finding might encourage searching for DCRT, the final goal being to achieve a more elaborated microscopic narrative of TA, the most prevalent of all colorectal adenomas.
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Affiliation(s)
- Carlos A Rubio
- Department of Oncology and Pathology, Karolinska Institute, Stockholm 17177, Sweden.
| | - Michael Vieth
- Institute of Pathology, Friedrich-Alexander-University Erlangen-Nuremberg, Klinikum Bayreuth, Bayreuth, Germany.
| | - Corinna Lang-Schwarz
- Institute of Pathology, Friedrich-Alexander-University Erlangen-Nuremberg, Klinikum Bayreuth, Bayreuth, Germany
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3
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Dhouailly D. The avian ectodermal default competence to make feathers. Dev Biol 2024; 508:64-76. [PMID: 38190932 DOI: 10.1016/j.ydbio.2024.01.002] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/22/2023] [Revised: 12/24/2023] [Accepted: 01/05/2024] [Indexed: 01/10/2024]
Abstract
Feathers originate as protofeathers before birds, in pterosaurs and basal dinosaurs. What characterizes a feather is not only its outgrowth, but its barb cells differentiation and a set of beta-corneous proteins. Reticula appear concomitantly with feathers, as small bumps on plantar skin, made only of keratins. Avian scales, with their own set of beta-corneous proteins, appear more recently than feathers on the shank, and only in some species. In the chick embryo, when feather placodes form, all the non-feather areas of the integument are already specified. Among them, midventral apterium, cornea, reticula, and scale morphogenesis appear to be driven by negative regulatory mechanisms, which modulate the inherited capacity of the avian ectoderm to form feathers. Successive dermal/epidermal interactions, initiated by the Wnt/β-catenin pathway, and involving principally Eda/Edar, BMP, FGF20 and Shh signaling, are responsible for the formation not only of feather, but also of scale placodes and reticula, with notable differences in the level of Shh, and probably FGF20 expressions. This sequence is a dynamic and labile process, the turning point being the FGF20 expression by the placode. This epidermal signal endows its associated dermis with the memory to aggregate and to stimulate the morphogenesis that follows, involving even a re-initiation of the placode.
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Affiliation(s)
- Danielle Dhouailly
- Department of Biology and Chemistry, University Grenoble-Alpes, Institute for Advanced Biosciences, 38700, La Tronche, France.
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4
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Chen A, Wang Q, Zhao X, Wang G, Zhang X, Ren X, Zhang Y, Cheng X, Yu X, Mei X, Wang H, Guo M, Jiang X, Wei G, Wang X, Jiang R, Guo X, Ning Z, Qu L. Molecular genetic foundation of a sex-linked tailless trait in Hongshan chicken by whole genome data analysis. Poult Sci 2024; 103:103685. [PMID: 38603937 PMCID: PMC11017342 DOI: 10.1016/j.psj.2024.103685] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/18/2024] [Revised: 03/08/2024] [Accepted: 03/18/2024] [Indexed: 04/13/2024] Open
Abstract
As a Chinese local chicken breed, Hongshan chickens have 2 kinds of tail feather phenotypes, normal and taillessness. Our previous studies showed that taillessness was a sex-linked dominant trait. Abnormal development of the tail vertebrae could be explained this phenomenon in some chicken breeds. However, the number of caudal vertebrae in rumpless Hongshan chickens was normal, so rumplessness in Hongshan chicken was not related to the development of the caudal vertebrae. Afterwards, we found that rumplessness in Hongshan was due to abnormal development of tail feather rather than abnormal development of caudal vertebrae. In order to understand the genetic foundation of the rumplessness of Hongshan chickens, we compared and reanalyzed 2 sets of data in normal and rumpless Hongshan chickens from our previous studies. By joint analysis of genome-wide selection signature analysis and genome-wide association approach, we found that 1 overlapping gene (EDIL3) and 16 peak genes (ENSGALG00000051843, ENSGALG00000053498, ENSGALG00000054800, KIF27, PTPRD, ENSGALG00000047579, ENSGALG00000041052, ARHGEF28, CAMK4, SERINC5, ENSGALG00000050776, ERCC8, MCC, ADAMTS19, ENSGALG00000053322, CHRNA8) located on the Z chromosome was associated with the rumpless trait. The results of this study furtherly revealed the molecular mechanism of the rumpless trait in Hongshan chickens, and identified the candidate genes associated with this trait. Our results will help to improve the shape of chicken tail feathers and to rise individual economic value in some specific market in China.
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Affiliation(s)
- Anqi Chen
- National Engineering Laboratory for Animal Breeding, College of Animal Science and Technology, China Agricultural University, Beijing 100193, China
| | - Qiong Wang
- National Key Laboratory of Mariculture Biobreeding and Sustainable Goods, Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Qingdao 266071, China
| | - Xiurong Zhao
- National Engineering Laboratory for Animal Breeding, College of Animal Science and Technology, China Agricultural University, Beijing 100193, China
| | - Gang Wang
- National Engineering Laboratory for Animal Breeding, College of Animal Science and Technology, China Agricultural University, Beijing 100193, China
| | - Xinye Zhang
- National Engineering Laboratory for Animal Breeding, College of Animal Science and Technology, China Agricultural University, Beijing 100193, China
| | - Xufang Ren
- National Engineering Laboratory for Animal Breeding, College of Animal Science and Technology, China Agricultural University, Beijing 100193, China
| | - Yalan Zhang
- National Engineering Laboratory for Animal Breeding, College of Animal Science and Technology, China Agricultural University, Beijing 100193, China
| | - Xue Cheng
- National Engineering Laboratory for Animal Breeding, College of Animal Science and Technology, China Agricultural University, Beijing 100193, China
| | - Xiaofan Yu
- National Engineering Laboratory for Animal Breeding, College of Animal Science and Technology, China Agricultural University, Beijing 100193, China
| | - Xiaohan Mei
- National Engineering Laboratory for Animal Breeding, College of Animal Science and Technology, China Agricultural University, Beijing 100193, China
| | - Huie Wang
- Xinjiang Production and Construction Corps, Key Laboratory of Protection and Utilization of Biological Resources in Tarim Basin, Tarim University, Alar 843300, China
| | - Menghan Guo
- National Engineering Laboratory for Animal Breeding, College of Animal Science and Technology, China Agricultural University, Beijing 100193, China
| | - Xiaoyu Jiang
- National Engineering Laboratory for Animal Breeding, College of Animal Science and Technology, China Agricultural University, Beijing 100193, China
| | - Guozhen Wei
- Qingliu Animal Husbandry, Veterinary and Aquatic Products Center, Sanming, China
| | - Xue Wang
- VVBK Animal Medical Diagnostic Technology (Beijing) Co., Ltd, Beijing, China
| | - Runshen Jiang
- College of Animal Science and Technology, Anhui Agricultural University, Hefei 230036, China
| | - Xing Guo
- College of Animal Science and Technology, Anhui Agricultural University, Hefei 230036, China
| | - Zhonghua Ning
- National Engineering Laboratory for Animal Breeding, College of Animal Science and Technology, China Agricultural University, Beijing 100193, China
| | - Lujiang Qu
- National Engineering Laboratory for Animal Breeding, College of Animal Science and Technology, China Agricultural University, Beijing 100193, China; Xinjiang Production and Construction Corps, Key Laboratory of Protection and Utilization of Biological Resources in Tarim Basin, Tarim University, Alar 843300, China.
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5
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Urban CA, Legendre LJ, Clarke JA. Description of natal down of the ostrich (Struthio camelus) and comparison with common quail (Coturnix coturnix): Developmental and evolutionary implications. J Anat 2023; 243:1007-1023. [PMID: 37515428 PMCID: PMC10641043 DOI: 10.1111/joa.13936] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/01/2023] [Revised: 06/18/2023] [Accepted: 07/13/2023] [Indexed: 07/30/2023] Open
Abstract
Natal down is a feather stage that differs in both form and function from the definitive feathers of adult birds. It has a simpler structure that has been speculated to be similar to the body coverings of non-avian dinosaurs. However, inference of the evolution of natal down has been limited by our understanding of its structural variation in extant birds. Most descriptive work has focused on neognathous birds, limiting our knowledge of the full diversity of feathers in extant taxa. Here, we describe the natal down of a post-hatch ostrich (Struthio camelus) and compare it to that of a post-hatch quail (Coturnix coturnix). We confirm the presence of featherless spaces (apteria) in S. camelus and the lack of barbules on the tips of natal down in both species. We also find differences between dorsal and ventral natal down structures, such as barbule density in S. camelus and the extent of the bare portion of the barb in both species. Surprisingly, we do not find that the neoptiles of either species follow the ideal morphologies for increasing insulation. Finally, we hypothesize that the different barb types present in S. camelus natal down result from a large addition of new barb ridges during development, which is not known except in feathers with a rachis. These results have implications for our understanding of how structure informs function and development in understudied feather types, such as those shared by non-avian dinosaurs.
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Affiliation(s)
- Carmen A Urban
- Jackson School of Geosciences, The University of Texas at Austin, Austin, Texas, USA
| | - Lucas J Legendre
- Jackson School of Geosciences, The University of Texas at Austin, Austin, Texas, USA
| | - Julia A Clarke
- Jackson School of Geosciences, The University of Texas at Austin, Austin, Texas, USA
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6
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Fraga Delfino Kunz C, Gerisch A, Glover J, Headon D, Painter KJ, Matthäus F. Novel Aspects in Pattern Formation Arise from Coupling Turing Reaction-Diffusion and Chemotaxis. Bull Math Biol 2023; 86:4. [PMID: 38038776 PMCID: PMC10692013 DOI: 10.1007/s11538-023-01225-5] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/18/2023] [Accepted: 10/11/2023] [Indexed: 12/02/2023]
Abstract
Recent experimental studies on primary hair follicle formation and feather bud morphogenesis indicate a coupling between Turing-type diffusion driven instability and chemotactic patterning. Inspired by these findings we develop and analyse a mathematical model that couples chemotaxis to a reaction-diffusion system exhibiting diffusion-driven (Turing) instability. While both systems, reaction-diffusion systems and chemotaxis, can independently generate spatial patterns, we were interested in how the coupling impacts the stability of the system, parameter region for patterning, pattern geometry, as well as the dynamics of pattern formation. We conduct a classical linear stability analysis for different model structures, and confirm our results by numerical analysis of the system. Our results show that the coupling generally increases the robustness of the patterning process by enlarging the pattern region in the parameter space. Concerning time scale and pattern regularity, we find that an increase in the chemosensitivity can speed up the patterning process for parameters inside and outside of the Turing space, but generally reduces spatial regularity of the pattern. Interestingly, our analysis indicates that pattern formation can also occur when neither the Turing nor the chemotaxis system can independently generate pattern. On the other hand, for some parameter settings, the coupling of the two processes can extinguish the pattern formation, rather than reinforce it. These theoretical findings can be used to corroborate the biological findings on morphogenesis and guide future experimental studies. From a mathematical point of view, this work sheds a light on coupling classical pattern formation systems from the parameter space perspective.
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Affiliation(s)
- Camile Fraga Delfino Kunz
- Frankfurt Institute for Advanced Studies and Department of Computer Science and Mathematics, Goethe-University Frankfurt, Ruth-Moufang-Str. 1, 60438, Frankfurt, Germany
| | - Alf Gerisch
- Department of Mathematics, Technical University Darmstadt, Darmstadt, Germany
| | - James Glover
- The Roslin Institute and R(D)SVS, University of Edinburgh, Edinburgh, EH25 9RG, UK
| | - Denis Headon
- The Roslin Institute and R(D)SVS, University of Edinburgh, Edinburgh, EH25 9RG, UK
| | - Kevin John Painter
- Dipartimento Interateneo di Scienze, Progetto e Politiche del Territorio (DIST), Politecnico di Torino, Turin, Italy
| | - Franziska Matthäus
- Frankfurt Institute for Advanced Studies and Department of Computer Science and Mathematics, Goethe-University Frankfurt, Ruth-Moufang-Str. 1, 60438, Frankfurt, Germany.
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7
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Li WH, Chuong CM, Chen CK, Wu P, Jiang TX, Harn HIC, Liu TY, Yu Z, Lu J, Chang YM, Yue Z, Lin J, Vu TD, Huang TY, Ng CS. Transition from natal downs to juvenile feathers: conserved regulatory switches in Neoaves. RESEARCH SQUARE 2023:rs.3.rs-3382427. [PMID: 37886492 PMCID: PMC10602114 DOI: 10.21203/rs.3.rs-3382427/v1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/28/2023]
Abstract
The transition from natal downs for heat conservation to juvenile feathers for simple flight is a remarkable environmental adaptation process in avian evolution. However, the underlying epigenetic mechanism for this primary feather transition is mostly unknown. Here we conducted time-ordered gene co-expression network construction, epigenetic analysis, and functional perturbations in developing feather follicles to elucidate four downy-juvenile feather transition events. We discovered that LEF1 works as a key hub of Wnt signaling to build rachis and converts radial downy to bilateral symmetry. Extracellular matrix reorganization leads to peripheral pulp formation, which mediates epithelial -mesenchymal interactions for branching morphogenesis. ACTA2 compartments dermal papilla stem cells for feather cycling. Novel usage of scale keratins strengthens feather sheath with SOX14 as the epigenetic regulator. We found this primary feather transition largely conserved in chicken (precocious) and zebra finch (altricial) and discussed the possibility that this evolutionary adaptation process started in feathered dinosaurs.
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Affiliation(s)
| | | | | | - Ping Wu
- University of Southern California
| | | | - Hans I-Chen Harn
- Department of Pathology, Keck School of Medicine, University of Southern California
| | - Tzu-Yu Liu
- Department of Pathology, Keck School of Medicine, University of Southern California
| | - Zhou Yu
- Department of Pathology, Keck School of Medicine, University of Southern California
| | - Jiayi Lu
- Department of Pathology, Keck School of Medicine, University of Southern California
| | | | | | | | - Trieu-Duc Vu
- Foundation for Advancement of International Science
| | - Tao-Yu Huang
- Biodiversity Research Center, Academia Sinica, Taipei
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8
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Ji G, Zhang M, Tu Y, Liu Y, Shan Y, Ju X, Zou J, Shu J, Sheng Z, Li H. Molecular Regulatory Mechanisms in Chicken Feather Follicle Morphogenesis. Genes (Basel) 2023; 14:1646. [PMID: 37628697 PMCID: PMC10454116 DOI: 10.3390/genes14081646] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/06/2023] [Revised: 08/10/2023] [Accepted: 08/16/2023] [Indexed: 08/27/2023] Open
Abstract
In China, the sale of freshly slaughtered chickens is becoming increasingly popular in comparison with that of live chickens, and due to this emerging trend, the skin and feather follicle traits of yellow-feathered broilers have attracted a great deal of research attention. The feather follicle originates from the interaction between the epidermis and dermis in the early embryonic stage. Feather follicle morphogenesis is regulated by the Wnt, ectodysplasin (Eda), epidermal growth factor (EGF), fibroblast growth factor (FGF), bone morphogenetic protein (BMP), sonic hedgehog (Shh), Notch, and other signaling pathways that exist in epithelial and mesenchymal cells. The Wnt pathway is essential for feather follicle and feather morphogenesis. Eda interacts with Wnt to induce FGF expression, which attracts mesenchymal cell movement and aggregates to form feather follicle primordia. BMP acts as an inhibitor of the above signaling pathways to limit the size of the feather tract and distance between neighboring feather primordia in a dose-dependent manner. The Notch/Delta pathway can interact with the FGF pathway to promote feather bud formation. While not a part of the early morphogenesis of feather follicles, Shh and BMP signaling are involved in late feather branching. This review summarizes the roles of miRNAs/lncRNA in the regulation of feather follicle and feather growth and development and suggests topics that need to be solved in a future study. This review focuses on the regulatory mechanisms involved in feather follicle morphogenesis and analyzes the impact of SNP sites on feather follicle traits in poultry. This work may help us to understand the molecular regulatory networks influencing feather follicle growth and provide basic data for poultry carcass quality.
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Affiliation(s)
- Gaige Ji
- Key Laboratory for Poultry Genetics and Breeding of Jiangsu Province, Chinese Academy of Agricultural Science, Institute of Poultry Science, Yangzhou 225125, China
| | - Ming Zhang
- Key Laboratory for Poultry Genetics and Breeding of Jiangsu Province, Chinese Academy of Agricultural Science, Institute of Poultry Science, Yangzhou 225125, China
| | - Yunjie Tu
- Key Laboratory for Poultry Genetics and Breeding of Jiangsu Province, Chinese Academy of Agricultural Science, Institute of Poultry Science, Yangzhou 225125, China
| | - Yifan Liu
- Key Laboratory for Poultry Genetics and Breeding of Jiangsu Province, Chinese Academy of Agricultural Science, Institute of Poultry Science, Yangzhou 225125, China
| | - Yanju Shan
- Key Laboratory for Poultry Genetics and Breeding of Jiangsu Province, Chinese Academy of Agricultural Science, Institute of Poultry Science, Yangzhou 225125, China
| | - Xiaojun Ju
- Key Laboratory for Poultry Genetics and Breeding of Jiangsu Province, Chinese Academy of Agricultural Science, Institute of Poultry Science, Yangzhou 225125, China
| | - Jianmin Zou
- Key Laboratory for Poultry Genetics and Breeding of Jiangsu Province, Chinese Academy of Agricultural Science, Institute of Poultry Science, Yangzhou 225125, China
| | - Jingting Shu
- Key Laboratory for Poultry Genetics and Breeding of Jiangsu Province, Chinese Academy of Agricultural Science, Institute of Poultry Science, Yangzhou 225125, China
| | - Zhongwei Sheng
- Key Laboratory for Poultry Genetics and Breeding of Jiangsu Province, Chinese Academy of Agricultural Science, Institute of Poultry Science, Yangzhou 225125, China
| | - Hua Li
- School of Life Science and Engineering, Foshan University, Foshan 528231, China
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9
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Xiao R, Gao Q, Azaele S, Sun Y. Effects of noise on the critical points of Turing instability in complex ecosystems. Phys Rev E 2023; 108:014407. [PMID: 37583214 DOI: 10.1103/physreve.108.014407] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2023] [Accepted: 07/01/2023] [Indexed: 08/17/2023]
Abstract
Noise is ubiquitous in natural and artificial systems. In a noisy environment, the interactions among nodes may fluctuate randomly, leading to more complicated interactions. In this paper we focus on the effects of noise and network topology on the Turing pattern of ecological networks with activator-inhibitor structure, which may be interpreted as prey-predator interactions. Based on the stability theory of stochastic differential equations, a sufficient condition for the uniform state is derived. The analytical results indicate that noise is beneficial for the uniform state. When the ratio between the diffusion coefficients of the predator and prey increases, the ecosystems can exhibit a transition from a uniform stable state to a Turing pattern, while when the ratio decreases, the ecosystems transit from a Turing pattern to a uniform stable state. There are two crucial critical points in Turing patterns, forward and backward. We find that both forward and backward critical points increase as the noise intensity increases. This means that noise favors a stable homogeneous state compared to a state with a heterogeneous pattern, which is consistent with the analytical results. In addition, noise can weaken the hysteresis phenomenon and even eliminate it in some cases. Furthermore, we report that network topology plays an important role in modulating the uniform state of ecosystems, such as the size of prey-predator systems, the network connectivity, and the strength of interaction.
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Affiliation(s)
- Rui Xiao
- School of Mathematics, China University of Mining and Technology, Xuzhou 221116, China
| | - Qingyu Gao
- College of Chemical Engineering, China University of Mining and Technology, Xuzhou 221116, China
| | - Sandro Azaele
- Department of Physics and Astronomy "G. Galileo," University of Padova, Padova Via Francesco Marzolo 8, 35131 Padova, Italy
| | - Yongzheng Sun
- School of Mathematics, China University of Mining and Technology, Xuzhou 221116, China
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10
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Dhouailly D. Evo Devo of the Vertebrates Integument. J Dev Biol 2023; 11:25. [PMID: 37367479 DOI: 10.3390/jdb11020025] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/19/2023] [Revised: 05/19/2023] [Accepted: 05/21/2023] [Indexed: 06/28/2023] Open
Abstract
All living jawed vertebrates possess teeth or did so ancestrally. Integumental surface also includes the cornea. Conversely, no other anatomical feature differentiates the clades so readily as skin appendages do, multicellular glands in amphibians, hair follicle/gland complexes in mammals, feathers in birds, and the different types of scales. Tooth-like scales are characteristic of chondrichthyans, while mineralized dermal scales are characteristic of bony fishes. Corneous epidermal scales might have appeared twice, in squamates, and on feet in avian lineages, but posteriorly to feathers. In contrast to the other skin appendages, the origin of multicellular glands of amphibians has never been addressed. In the seventies, pioneering dermal-epidermal recombination between chick, mouse and lizard embryos showed that: (1) the clade type of the appendage is determined by the epidermis; (2) their morphogenesis requires two groups of dermal messages, first for primordia formation, second for appendage final architecture; (3) the early messages were conserved during amniotes evolution. Molecular biology studies that have identified the involved pathways, extending those data to teeth and dermal scales, suggest that the different vertebrate skin appendages evolved in parallel from a shared placode/dermal cells unit, present in a common toothed ancestor, c.a. 420 mya.
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Affiliation(s)
- Danielle Dhouailly
- Department of Biology and Chemistry, Institute for Advanced Biosciences, University Grenoble-Alpes, 38700 La Tronche, France
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11
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Hartmann J, Mayor R. Self-organized collective cell behaviors as design principles for synthetic developmental biology. Semin Cell Dev Biol 2023; 141:63-73. [PMID: 35450765 DOI: 10.1016/j.semcdb.2022.04.009] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/23/2022] [Accepted: 04/12/2022] [Indexed: 10/18/2022]
Abstract
Over the past two decades, molecular cell biology has graduated from a mostly analytic science to one with substantial synthetic capability. This success is built on a deep understanding of the structure and function of biomolecules and molecular mechanisms. For synthetic biology to achieve similar success at the scale of tissues and organs, an equally deep understanding of the principles of development is required. Here, we review some of the central concepts and recent progress in tissue patterning, morphogenesis and collective cell migration and discuss their value for synthetic developmental biology, emphasizing in particular the power of (guided) self-organization and the role of theoretical advances in making developmental insights applicable in synthesis.
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Affiliation(s)
- Jonas Hartmann
- Department of Cell and Developmental Biology, University College London, Gower Street, London WC1E 6BT, UK.
| | - Roberto Mayor
- Department of Cell and Developmental Biology, University College London, Gower Street, London WC1E 6BT, UK.
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12
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Cooper RL, Milinkovitch MC. Transient agonism of the sonic hedgehog pathway triggers a permanent transition of skin appendage fate in the chicken embryo. SCIENCE ADVANCES 2023; 9:eadg9619. [PMID: 37196093 DOI: 10.1126/sciadv.adg9619] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/01/2023] [Accepted: 04/13/2023] [Indexed: 05/19/2023]
Abstract
Vertebrate skin appendage early development is mediated by conserved molecular signaling composing a dynamical reaction-diffusion-like system. Variations to such systems contribute to the remarkable diversity of skin appendage forms within and among species. Here, we demonstrate that stage-specific transient agonism of sonic hedgehog (Shh) pathway signaling in chicken triggers a complete and permanent transition from reticulate scales to feathers on the ventral surfaces of the foot and digits. Resulting ectopic feathers are developmentally comparable to feathers adorning the body, with down-type feathers transitioning into regenerative, bilaterally symmetric contour feathers in adult chickens. Crucially, this spectacular transition of skin appendage fate (from nodular reticulate scales to bona fide adult feathers) does not require sustained treatment. Our RNA sequencing analyses confirm that smoothened agonist treatment specifically promotes the expression of key Shh pathway-associated genes. These results indicate that variations in Shh pathway signaling likely contribute to the natural diversity and regionalization of avian integumentary appendages.
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Affiliation(s)
- Rory L Cooper
- Laboratory of Artificial and Natural Evolution (LANE), Department of Genetics and Evolution, University of Geneva, 1211 Geneva, Switzerland
| | - Michel C Milinkovitch
- Laboratory of Artificial and Natural Evolution (LANE), Department of Genetics and Evolution, University of Geneva, 1211 Geneva, Switzerland
- SIB Swiss Institute of Bioinformatics, Geneva, Switzerland
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13
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Terrill RS, Shultz AJ. Feather function and the evolution of birds. Biol Rev Camb Philos Soc 2023; 98:540-566. [PMID: 36424880 DOI: 10.1111/brv.12918] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/29/2022] [Revised: 10/27/2022] [Accepted: 10/31/2022] [Indexed: 11/26/2022]
Abstract
The ability of feathers to perform many functions either simultaneously or at different times throughout the year or life of a bird is integral to the evolutionary history of birds. Many studies focus on single functions of feathers, but any given feather performs many functions over its lifetime. These functions necessarily interact with each other throughout the evolution and development of birds, so our knowledge of avian evolution is incomplete without understanding the multifunctionality of feathers, and how different functions may act synergistically or antagonistically during natural selection. Here, we review how feather functions interact with avian evolution, with a focus on recent technological and discovery-based advances. By synthesising research into feather functions over hierarchical scales (pattern, arrangement, macrostructure, microstructure, nanostructure, molecules), we aim to provide a broad context for how the adaptability and multifunctionality of feathers have allowed birds to diversify into an astounding array of environments and life-history strategies. We suggest that future research into avian evolution involving feather function should consider multiple aspects of a feather, including multiple functions, seasonal wear and renewal, and ecological or mechanical interactions. With this more holistic view, processes such as the evolution of avian coloration and flight can be understood in a broader and more nuanced context.
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Affiliation(s)
- Ryan S Terrill
- Moore Laboratory of Zoology, Occidental College, 1600 Campus rd., Los Angeles, CA, 90042, USA
- Department of Biological Sciences, California State University, Stanislaus, Turlock, CA, 95382, USA
| | - Allison J Shultz
- Ornithology Department, Natural History Museum of Los Angeles County, 900 Exposition Blvd., Los Angeles, CA, 90007, USA
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14
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Kurosawa Y, Goto S, Mitsuya K, Otsuka Y, Yokoyama H. Interaction mode of hydroxypropyl-β-cyclodextrin with vaccine adjuvant components Tween 80 and Triton X-100 revealed by fluorescence increasing-quenching analysis. Phys Chem Chem Phys 2023; 25:6203-6213. [PMID: 36753064 DOI: 10.1039/d3cp00094j] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
Abstract
The nonionic surfactants Tween 80 (Tw80) and Triton X-100 (TX100), which are used as components of adjuvants, were used with bovine serum albumin (BSA) and hydroxfypropyl-β-cyclodextrin (HP-β-CD) as model antigens. The interaction patterns of Tw80 and TX100 with the hydrophobic cores of the model antigens were investigated. The fluorescence of 8-anilinonaphthalene-1-sulfonic acid (ANS), a hydrophobic fluorescent probe, was used to evaluate the effect of surfactants on each model antigen. A Hanes Woolf plot was used to analyze the adsorption of ANS to BSA, and an activator-inhibitor model was used to analyze the concentration-dependent increase and decrease of ANS fluorescence intensity. For BSA, TX100 occupies the ANS binding site inside the BSA hydrophobic core, while Tw80 does not contribute to the ANS binding site in the hydrophobic core. For HP-β-CD, the ANS concentration required for analyzable fluorescence intensity extended to the range where ANS concentration-dependent quenching was not negligible. Using the activator inhibitor model, we were able to separate the activators and inhibitors of ANS fluorescence and evaluate the affinity of ANS for HP-β-CD and surfactants. The results obtained showed that TX100 provided a hydrophobic environment to the ANS while being encapsulated by HP-β-CD, while Tw80 did not interact with HP-β-CD and provided a hydrophobic environment to the ANS independently of each other. The interpretations obtained were corroborated by the determination of the CMC of TX100 and Tw80, the effect of salt on ANS fluorescence, and 1H-NMR and ROESY. In summary, the results showed that the large hydrophilic head of Tween, composed of sorbitan and PEG chains, floated in the aqueous phase like a balloon, while Triton pierced the hydrophobic core of the antigen like a spear. In both BSA and HP-β-CD model antigens, TX100 impinged on the hydrophobic core.
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Affiliation(s)
- Yuya Kurosawa
- Faculty of Pharmaceutical Sciences, Division of Colloid and Surface Science, Research Institute for Science and Technology, Tokyo University of Science, 2641 Yamasaki, Noda, Chiba, 278-8510, Japan.
| | - Satoru Goto
- Faculty of Pharmaceutical Sciences, Division of Colloid and Surface Science, Research Institute for Science and Technology, Tokyo University of Science, 2641 Yamasaki, Noda, Chiba, 278-8510, Japan.
| | - Kengo Mitsuya
- Faculty of Pharmaceutical Sciences, Division of Colloid and Surface Science, Research Institute for Science and Technology, Tokyo University of Science, 2641 Yamasaki, Noda, Chiba, 278-8510, Japan.
| | - Yuta Otsuka
- Faculty of Pharmaceutical Sciences, Division of Colloid and Surface Science, Research Institute for Science and Technology, Tokyo University of Science, 2641 Yamasaki, Noda, Chiba, 278-8510, Japan.
| | - Hideshi Yokoyama
- Faculty of Pharmaceutical Sciences, Division of Colloid and Surface Science, Research Institute for Science and Technology, Tokyo University of Science, 2641 Yamasaki, Noda, Chiba, 278-8510, Japan.
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15
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Khan AQ, Saleem Z, Ibrahim TF, Osman K, Alshehri FM, El-Moneam MA. Bifurcation and chaos in a discrete activator-inhibitor system. AIMS MATHEMATICS 2023; 8:4551-4574. [DOI: 10.3934/math.2023225] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 09/02/2023]
Abstract
<abstract><p>In this paper, we explore local dynamic characteristics, bifurcations and control in the discrete activator-inhibitor system. More specifically, it is proved that discrete-time activator-inhibitor system has an interior equilibrium solution. Then, by using linear stability theory, local dynamics with different topological classifications for the interior equilibrium solution are investigated. It is investigated that for the interior equilibrium solution, discrete activator-inhibitor system undergoes Neimark-Sacker and flip bifurcations. Further chaos control is studied by the feedback control method. Finally, numerical simulations are presented to validate the obtained theoretical results.</p></abstract>
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Affiliation(s)
- Abdul Qadeer Khan
- Department of Mathematics, University of Azad Jammu and Kashmir, Muzaffarabad 13100, Pakistan
| | - Zarqa Saleem
- Department of Mathematics, University of Azad Jammu and Kashmir, Muzaffarabad 13100, Pakistan
| | - Tarek Fawzi Ibrahim
- Department of Mathematics, Faculty of Sciences and Arts (Mahayel), King Khalid University Abha, Saudi Arabia
- Department of Mathematics, Faculty of Science, Mansoura University, Egypt
| | - Khalid Osman
- Department of Mathematics, Faculty of Sciences and Arts in Sarat Abeda, King Khalid University, Abha, Saudi Arabia
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16
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Zimm R, Oberdick D, Gnetneva A, Schneider P, Cebra-Thomas J, Moustakas-Verho JE. Turing's turtles all the way down: A conserved role of EDAR in the carapacial ridge suggests a deep homology of prepatterns across ectodermal appendages. Anat Rec (Hoboken) 2022; 306:1201-1213. [PMID: 36239299 DOI: 10.1002/ar.25096] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2022] [Revised: 09/26/2022] [Accepted: 10/03/2022] [Indexed: 11/11/2022]
Abstract
The scutes of the turtle shell are epidermal shields that begin their formation during the early stages of shell development. Like other skin appendages, turtle scutes are hypothesized to be patterned by reaction-diffusion systems. We have previously established ex vivo and in silico systems to study these mechanisms experimentally and have further shown that mathematical models can explain the dynamics of the induction of turtle scute primordia and the generation of final scute architecture. Using these foundations, we expand our current knowledge and test the roles of ectodysplasin and activin signaling in the development of turtle scutes. We find that these molecules play important roles in the prepatterning of scute primordia along the carapacial ridge and show that blocking Edar signaling may lead to a complete loss of marginal scute primordia. We show that it is possible to reproduce these observations using simple mathematical modeling, thereby suggesting a stabilizing role for ectodysplasin within the reaction-diffusion mechanisms. Finally, we argue that our findings further entrench turtle scutes within a class of developmental systems composed of hierarchically nested reaction-diffusion mechanisms, which is conserved across ectodermal organs.
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Affiliation(s)
- Roland Zimm
- Institute of Functional Genomics, Ecole Normale Supérieure de Lyon, Lyon, France
| | - Danielle Oberdick
- Department of Biology, Millersville University, Millersville, Pennsylvania, USA
| | - Anna Gnetneva
- Zoological Institute of the Russian Academy of Sciences, Saint Petersburg, Russia
| | - Pascal Schneider
- Department of Immunobiology, University of Lausanne, Epalinges, Switzerland
| | - Judith Cebra-Thomas
- Department of Biology, Millersville University, Millersville, Pennsylvania, USA
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17
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Chang L, Guo L, Liu C, Wang Z, Sun G. The qualitative and quantitative relationships between pattern formation and average degree in networked reaction-diffusion systems. CHAOS (WOODBURY, N.Y.) 2022; 32:093129. [PMID: 36182400 DOI: 10.1063/5.0107504] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/05/2022] [Accepted: 08/26/2022] [Indexed: 06/16/2023]
Abstract
The Turing pattern is an important dynamic behavior characteristic of activator-inhibitor systems. Differentiating from traditional assumption of activator-inhibitor interactions in a spatially continuous domain, a Turing pattern in networked reaction-diffusion systems has received much attention during the past few decades. In spite of its great progress, it still fails to evaluate the precise influences of network topology on pattern formation. To this end, we try to promote the research on this important and interesting issue from the point of view of average degree-a critical topological feature of networks. We first qualitatively analyze the influence of average degree on pattern formation. Then, a quantitative relationship between pattern formation and average degree, the exponential decay of pattern formation, is proposed via nonlinear regression. The finding holds true for several activator-inhibitor systems including biology model, ecology model, and chemistry model. The significance of this study lies that the exponential decay not only quantitatively depicts the influence of average degree on pattern formation, but also provides the possibility for predicting and controlling pattern formation.
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Affiliation(s)
- Lili Chang
- Complex Systems Research Center, Shanxi University, Taiyuan 030006, Shanxi, China
| | - Luyao Guo
- School of Mathematics, Southeast University, Nanjing 210096, China
| | - Chen Liu
- School of Ecology and Environment Science, Northwestern Polytechnical University, Xi'an 710072, Shaanxi, China
| | - Zhen Wang
- Center for Optical Imagery Analysis and Learning, Northwestern Polytechnical University, Xi'an 710072, Shaanxi, China
| | - Guiquan Sun
- Department of Mathematics, North University of China, Taiyuan 030051, Shanxi, China
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18
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Escárcega-Bobadilla MV, Maldonado-Domínguez M, Romero-Ávila M, Zelada-Guillén GA. Turing patterns by supramolecular self-assembly of a single salphen building block. iScience 2022; 25:104545. [PMID: 35747384 PMCID: PMC9209723 DOI: 10.1016/j.isci.2022.104545] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/07/2022] [Revised: 05/15/2022] [Accepted: 06/02/2022] [Indexed: 11/02/2022] Open
Abstract
In the 1950s, Alan Turing showed that concerted reactions and diffusion of activating and inhibiting chemical species can autonomously generate patterns without previous positional information, thus providing a chemical basis for morphogenesis in Nature. However, access to these patterns from only one molecular component that contained all the necessary information to execute agonistic and antagonistic signaling is so far an elusive goal, since two or more participants with different diffusivities are a must. Here, we report on a single-molecule system that generates Turing patterns arrested in the solid state, where supramolecular interactions are used instead of chemical reactions, whereas diffusional differences arise from heterogeneously populated self-assembled products. We employ a family of hydroxylated organic salphen building blocks based on a bis-Schiff-base scaffold with portions responsible for either activation or inhibition of assemblies at different hierarchies through purely supramolecular reactions, only depending upon the solvent dielectric constant and evaporation as fuel.
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Affiliation(s)
- Martha V Escárcega-Bobadilla
- School of Chemistry, National Autonomous University of Mexico (UNAM), Circuito Escolar s/n, Ciudad Universitaria, 04510 Mexico City, Mexico
| | - Mauricio Maldonado-Domínguez
- School of Chemistry, National Autonomous University of Mexico (UNAM), Circuito Escolar s/n, Ciudad Universitaria, 04510 Mexico City, Mexico.,Department of Computational Chemistry, J. Heyrovský Institute of Physical Chemistry, The Czech Academy of Sciences, Dolejškova 3, 18223 Prague 8, Czech Republic
| | - Margarita Romero-Ávila
- School of Chemistry, National Autonomous University of Mexico (UNAM), Circuito Escolar s/n, Ciudad Universitaria, 04510 Mexico City, Mexico
| | - Gustavo A Zelada-Guillén
- School of Chemistry, National Autonomous University of Mexico (UNAM), Circuito Escolar s/n, Ciudad Universitaria, 04510 Mexico City, Mexico
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19
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Morita W, Morimoto N, Otsu K, Miura T. Stripe and spot selection in cusp patterning of mammalian molar formation. Sci Rep 2022; 12:9149. [PMID: 35701484 PMCID: PMC9197828 DOI: 10.1038/s41598-022-13539-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/17/2022] [Accepted: 05/25/2022] [Indexed: 11/09/2022] Open
Abstract
Tooth development is governed largely by epithelial-mesenchymal interactions and is mediated by numerous signaling pathways. This type of morphogenetic processes has been explained by reaction-diffusion systems, especially in the framework of a Turing model. Here we focus on morphological and developmental differences between upper and lower molars in mice by modeling 2D pattern formation in a Turing system. Stripe vs. spot patterns are the primary types of variation in a Turing model. We show that the complexity of the cusp cross-sections can distinguish between stripe vs. spot patterns, and mice have stripe-like upper and spot-like lower molar morphologies. Additionally, our computational modeling that incorporates empirical data on tooth germ growth traces the order of cusp formation and relative position of the cusps in upper and lower molars in mice. We further propose a hypothetical framework of developmental mechanism that could help us understand the evolution of the highly variable nature of mammalian molars associated with the acquisition of the hypocone and the increase of lophedness.
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Affiliation(s)
- Wataru Morita
- Department of Anthropology, National Museum of Nature and Science, Ibaraki, Japan.
| | - Naoki Morimoto
- Laboratory of Physical Anthropology, Department of Zoology, Graduate School of Science, Kyoto University, Kyoto, Japan
| | - Keishi Otsu
- Division of Developmental Biology and Regenerative Medicine, Department of Anatomy, Iwate Medical University, Iwate, Japan
| | - Takashi Miura
- Department of Anatomy and Cell Biology, Graduate School of Medical Sciences, Kyushu University, Fukuoka, Japan
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20
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Rubio CA, Schmidt PT, Lang-Schwarz C, Vieth M. Branching crypts in inflammatory bowel disease revisited. J Gastroenterol Hepatol 2022; 37:440-445. [PMID: 34750862 DOI: 10.1111/jgh.15734] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 07/30/2021] [Accepted: 10/26/2021] [Indexed: 12/13/2022]
Abstract
Histologic sections from patients with inflammatory bowel disease (IBD) usually exhibit crypts with architectural distortions and branching crypts. It has been postulated that crypt branching should be assessed only in well-oriented, upright crypts. However, those crypts are mostly found in sections from colectomy specimens and colon mucosectomies. Sections from endoscopic biopsies are fortuitously cut in a horizontal plane, a procedure mostly revealing cross-cut crypt rings. In endoscopic biopsies from UC patients we previously detected cross-cut crypts heralding the crest domain of branching crypts. Recently, the scrutiny of biopsies from IBD patients revealed that branching-crest domains concurred either with crypts in symmetric branching, typified by twin, amalgamating back-to-back isometrics crypt-rings, or with crypts in asymmetric branching, characterized by ≥2 amalgamating anisometric crypt-rings; both symmetric and asymmetric branching-crest domains were encased by a thin muscularis mucosae. Quantitative studies in biopsies from Swedish and German patients with IBD showed that crypts in asymmetric branching outnumbered those in symmetric branching. Because crypt-branching seldom occurs in the normal colon in adults and considering that colon crypts typically divide once or twice during a lifetime, the accruing of asymmetric branching crypts in IBD biopsies emerges as a significant histologic parameter. Although the biological significance of asymmetric crypt-branching in IBD remains at present elusive, their occurrence deserves to be further investigated. The future policy will be to include in our pathologic reports, the number of crypts in asymmetric branching, in order to monitor their frequency in prospective surveillance biopsies in patients with IBD.
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Affiliation(s)
- Carlos A Rubio
- Department of Pathology, Karolinska Institute and University Hospital, Stockholm, Sweden
| | - Peter T Schmidt
- Department of Medicine, Karolinska Institute and Ersta Hospital, Stockholm, Sweden
| | | | - Michael Vieth
- Friedrich-Alexander-University Erlangen-Nuremberg, Bayreuth, Germany
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21
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Xu Q, Xi Y, Ma S, Wang J, Li J, Han C, Li L, Wang J, Liu H. Transcriptome profiling of morphogenetic differences between contour and flight feathers in duck. Br Poult Sci 2022; 63:597-604. [PMID: 35000502 DOI: 10.1080/00071668.2022.2026292] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/02/2022]
Abstract
1. This study examined the transcriptomic profiles of contour and flight feather follicles from two duck breeds to determine the molecular network and the candidate genes associated with contour and flight feather morphogenesis.2. High-throughput RNA sequencing was performed to compare differences in feather follicles between contour and flight feathers in two duck breeds (Heiwu and Nonghua duck).3. Comparing the contour feather follicles with flight feather follicles, 4,757 and 4,820 differentially expressed genes (DEGs) were identified in Heiwu and Nonghua duck respectively. Weighted gene co-expression network analysis (WGCNA) was used to construct a gene co-expression network of all DEGs and identify the key modules and hub genes associated with feather morphogenesis.4. Two key modules were enriched in many pathways involved in feather morphogenesis, such as the Wnt signalling pathway, anatomical structure morphogenesis, and focal adhesion. The CCNA2, TTK, NUF2, ECT2 and INCENP (in one module), and PRSS23, LAMC1, IGFBP3, SHISA5, and APLP2 (in another module) may be essential candidate genes for influencing feather morphology. Moreover, seven transcription factors (TFs) (UBP1, MBD2, ZNF512B, SMAD1, CAPN15, JDP2, KLF10, and MEF2A) were predicted to regulate the essential genes that contribute to feather morphogenesis.5. This work demonstrated gene expression changes of contour and flight feather follicles and is beneficial for further understanding of the complex structure of feathers.
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Affiliation(s)
- Qian Xu
- Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu, Sichuan, P.R. China
| | - Yang Xi
- Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu, Sichuan, P.R. China
| | - Shengchao Ma
- Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu, Sichuan, P.R. China
| | - Jianmei Wang
- Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu, Sichuan, P.R. China
| | - Junpeng Li
- Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu, Sichuan, P.R. China
| | - Chunchun Han
- Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu, Sichuan, P.R. China
| | - Liang Li
- Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu, Sichuan, P.R. China
| | - Jiwen Wang
- Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu, Sichuan, P.R. China
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22
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Fixed and Distributed Gene Expression Time Delays in Reaction-Diffusion Systems. Bull Math Biol 2022; 84:98. [PMID: 35934760 PMCID: PMC9357602 DOI: 10.1007/s11538-022-01052-0] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/10/2022] [Accepted: 06/30/2022] [Indexed: 12/17/2022]
Abstract
Time delays, modelling the process of intracellular gene expression, have been shown to have important impacts on the dynamics of pattern formation in reaction-diffusion systems. In particular, past work has shown that such time delays can shrink the Turing space, thereby inhibiting patterns from forming across large ranges of parameters. Such delays can also increase the time taken for pattern formation even when Turing instabilities occur. Here, we consider reaction-diffusion models incorporating fixed or distributed time delays, modelling the underlying stochastic nature of gene expression dynamics, and analyse these through a systematic linear instability analysis and numerical simulations for several sets of different reaction kinetics. We find that even complicated distribution kernels (skewed Gaussian probability density functions) have little impact on the reaction-diffusion dynamics compared to fixed delays with the same mean delay. We show that the location of the delay terms in the model can lead to changes in the size of the Turing space (increasing or decreasing) as the mean time delay, [Formula: see text], is increased. We show that the time to pattern formation from a perturbation of the homogeneous steady state scales linearly with [Formula: see text], and conjecture that this is a general impact of time delay on reaction-diffusion dynamics, independent of the form of the kinetics or location of the delayed terms. Finally, we show that while initial and boundary conditions can influence these dynamics, particularly the time-to-pattern, the effects of delay appear robust under variations of initial and boundary data. Overall, our results help clarify the role of gene expression time delays in reaction-diffusion patterning, and suggest clear directions for further work in studying more realistic models of pattern formation.
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23
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Gao J, Wang X, Gu C, Shen C, Yang H. Irregular spots on body surfaces of vertebrates induced by supercritical pitchfork bifurcations. CHAOS (WOODBURY, N.Y.) 2022; 32:013129. [PMID: 35105114 DOI: 10.1063/5.0070325] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/06/2021] [Accepted: 01/03/2022] [Indexed: 06/14/2023]
Abstract
The classical Turing mechanism containing a long-range inhibition and a short-range self-enhancement provides a type of explanation for the formation of patterns on body surfaces of some vertebrates, e.g., zebras, giraffes, and cheetahs. For other type of patterns (irregular spots) on body surfaces of some vertebrates, e.g., loaches, finless eels, and dalmatian dogs, the classical Turing mechanism no longer applies. Here, we propose a mechanism, i.e., the supercritical pitchfork bifurcation, which may explain the formation of this type of irregular spots, and present a method to quantify the similarity of such patterns. We assume that, under certain conditions, the only stable state of "morphogen" loses its stability and transitions to two newly generated stable states with the influence of external noise, thus producing such ruleless piebald patterns in space. The difference between the competitiveness of these two states may affect the resulting pattern. Moreover, we propose a mathematical model based on this conjecture and obtain this type of irregular patterns by numerical simulation. Furthermore, we also study the influence of parameters in the model on pattern structures and obtain the corresponding pattern structures of some vertebrates in nature, which verifies our conjecture.
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Affiliation(s)
- Jian Gao
- School of Mathematics and Physics, Anqing Normal University, Anqing 246011, People's Republic of China
| | - Xin Wang
- School of Mathematics and Physics, Anqing Normal University, Anqing 246011, People's Republic of China
| | - Changgui Gu
- Business School, University of Shanghai for Science and Technology, Shanghai 200093, People's Republic of China
| | - Chuansheng Shen
- School of Mathematics and Physics, Anqing Normal University, Anqing 246011, People's Republic of China
| | - Huijie Yang
- Business School, University of Shanghai for Science and Technology, Shanghai 200093, People's Republic of China
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24
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Conserved Mechanisms, Novel Anatomies: The Developmental Basis of Fin Evolution and the Origin of Limbs. DIVERSITY 2021. [DOI: 10.3390/d13080384] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
The transformation of paired fins into tetrapod limbs is one of the most intensively scrutinized events in animal evolution. Early anatomical and embryological datasets identified distinctive morphological regions within the appendage and posed hypotheses about how the loss, gain, and transformation of these regions could explain the observed patterns of both extant and fossil appendage diversity. These hypotheses have been put to the test by our growing understanding of patterning mechanisms that regulate formation of the appendage axes, comparisons of gene expression data from an array of phylogenetically informative taxa, and increasingly sophisticated and elegant experiments leveraging the latest molecular approaches. Together, these data demonstrate the remarkable conservation of developmental mechanisms, even across phylogenetically and morphologically disparate taxa, as well as raising new questions about the way we view homology, evolutionary novelty, and the often non-linear connection between morphology and gene expression. In this review, we present historical hypotheses regarding paired fin evolution and limb origins, summarize key aspects of central appendage patterning mechanisms in model and non-model species, address how modern comparative developmental data interface with our understanding of appendage anatomy, and highlight new approaches that promise to provide new insight into these well-traveled questions.
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25
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Rubio CA, Schmidt PT. Asymmetric crypt fission in sessile serrated lesions. J Clin Pathol 2020; 74:712-717. [PMID: 33046564 DOI: 10.1136/jclinpath-2020-207008] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/05/2020] [Revised: 08/18/2020] [Accepted: 08/19/2020] [Indexed: 01/16/2023]
Abstract
OBJECTIVE Sessile serrated lesions without dysplasia (SSL-ND) are epitomised by dilated crypts with epithelial serrations and architectural distortions portraying boot-shapes, L-shapes or inverted-T shapes. Recently, crypts in asymmetric fission were detected in SSL-ND. The purpose was to assess the frequency of crypts in asymmetric fission in a cohort of SSL-ND. METHODS The frequency of crypts in fission was assessed in 60 SSL-ND, the distribution of cell proliferation in 48 SSL-ND and the expression of maspin, a tumour-suppressor protein, in 29 SSL-ND. RESULTS Out of the 60 SSL-ND, 40 (66.7%) showed crypts in fission: 39 (65%) SSL-ND had crypts in asymmetric fission and one SSL-ND (1.7%), in symmetric fission (p<0.05). Of 1495 crypts recorded in the 60 SSL-ND, 73 (4.9%) were in asymmetric fission but only one (0.06%), in symmetric fission (p<0.05). Out of the 48 Ki67-immunostained SSL-ND,15 (31%) showed randomly distributed proliferating cell-domains. All 29 SSL-ND revealed maspin-upregulation (including crypts in asymmetric and symmetric fission). In contrast, the normal colon mucosa showed occasional single crypts in symmetric fission, proliferating cell-domains limited to the lower thirds of the crypts, absence of crypts in asymmetric fission and remained maspin negative. CONCLUSIONS SSL-ND thrive with crypts in asymmetric fission displaying randomly distributed proliferating cell-domains and maspin-upregulation. These histo-biological aberrations disclose pathological cryptogenesis and suggest possibly unfolding somatic mutations in SSL-ND. The present findings may open new vistas on the parameters pertinent to the susceptibility of SSL-ND to develop dysplasia and carcinoma.
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Affiliation(s)
- Carlos A Rubio
- Department of Pathology, Karolinska Institute, Stockholm, Sweden
| | - Peter T Schmidt
- Medicine (Solna), Karolinska Institute and Ersta Hospital, Stockholm, Sweden
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The Making of a Flight Feather: Bio-architectural Principles and Adaptation. Cell 2020; 179:1409-1423.e17. [PMID: 31778655 DOI: 10.1016/j.cell.2019.11.008] [Citation(s) in RCA: 19] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/29/2019] [Revised: 08/09/2019] [Accepted: 11/01/2019] [Indexed: 01/14/2023]
Abstract
The evolution of flight in feathered dinosaurs and early birds over millions of years required flight feathers whose architecture features hierarchical branches. While barb-based feather forms were investigated, feather shafts and vanes are understudied. Here, we take a multi-disciplinary approach to study their molecular control and bio-architectural organizations. In rachidial ridges, epidermal progenitors generate cortex and medullary keratinocytes, guided by Bmp and transforming growth factor β (TGF-β) signaling that convert rachides into adaptable bilayer composite beams. In barb ridges, epidermal progenitors generate cylindrical, plate-, or hooklet-shaped barbule cells that form fluffy branches or pennaceous vanes, mediated by asymmetric cell junction and keratin expression. Transcriptome analyses and functional studies show anterior-posterior Wnt2b signaling within the dermal papilla controls barbule cell fates with spatiotemporal collinearity. Quantitative bio-physical analyses of feathers from birds with different flight characteristics and feathers in Burmese amber reveal how multi-dimensional functionality can be achieved and may inspire future composite material designs. VIDEO ABSTRACT.
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Busby L, Aceituno C, McQueen C, Rich CA, Ros MA, Towers M. Sonic hedgehog specifies flight feather positional information in avian wings. Development 2020; 147:147/9/dev188821. [PMID: 32376617 PMCID: PMC7225127 DOI: 10.1242/dev.188821] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/27/2020] [Accepted: 03/24/2020] [Indexed: 11/24/2022]
Abstract
Classical tissue recombination experiments performed in the chick embryo provide evidence that signals operating during early limb development specify the position and identity of feathers. Here, we show that Sonic hedgehog (Shh) signalling in the embryonic chick wing bud specifies positional information required for the formation of adult flight feathers in a defined spatial and temporal sequence that reflects their different identities. We also reveal that Shh signalling is interpreted into specific patterns of Sim1 and Zic transcription factor expression, providing evidence of a putative gene regulatory network operating in flight feather patterning. Our data suggest that flight feather specification involved the co-option of the pre-existing digit patterning mechanism and therefore uncovers an embryonic process that played a fundamental step in the evolution of avian flight.
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Affiliation(s)
- Lara Busby
- Department of Biomedical Science, University of Sheffield, Western Bank, Sheffield S10 2TN, UK
| | - Cristina Aceituno
- Instituto de Biomedicina y Biotecnología de Cantabria, IBBTEC (CSIC-Universidad de Cantabria - SODERCAN), 39011 Santander, Spain
| | - Caitlin McQueen
- Department of Biomedical Science, University of Sheffield, Western Bank, Sheffield S10 2TN, UK
| | - Constance A. Rich
- Department of Biomedical Science, University of Sheffield, Western Bank, Sheffield S10 2TN, UK
| | - Maria A. Ros
- Instituto de Biomedicina y Biotecnología de Cantabria, IBBTEC (CSIC-Universidad de Cantabria - SODERCAN), 39011 Santander, Spain,Departamento de Anatomía y Biología Celular, Facultad de Medicina, Universidad de Cantabria, 39011 Santander, Spain,Authors for correspondence (; )
| | - Matthew Towers
- Department of Biomedical Science, University of Sheffield, Western Bank, Sheffield S10 2TN, UK
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On the specificity of gene regulatory networks: How does network co-option affect subsequent evolution? Curr Top Dev Biol 2020; 139:375-405. [PMID: 32450967 DOI: 10.1016/bs.ctdb.2020.03.002] [Citation(s) in RCA: 19] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/04/2023]
Abstract
The process of multicellular organismal development hinges upon the specificity of developmental programs: for different parts of the organism to form unique features, processes must exist to specify each part. This specificity is thought to be hardwired into gene regulatory networks, which activate cohorts of genes in particular tissues at particular times during development. However, the evolution of gene regulatory networks sometimes occurs by mechanisms that sacrifice specificity. One such mechanism is network co-option, in which existing gene networks are redeployed in new developmental contexts. While network co-option may offer an efficient mechanism for generating novel phenotypes, losses of tissue specificity at redeployed network genes could restrict the ability of the affected traits to evolve independently. At present, there has not been a detailed discussion regarding how tissue specificity of network genes might be altered due to gene network co-option at its initiation, as well as how trait independence can be retained or restored after network co-option. A lack of clarity about network co-option makes it more difficult to speculate on the long-term evolutionary implications of this mechanism. In this review, we will discuss the possible initial outcomes of network co-option, outline the mechanisms by which networks may retain or subsequently regain specificity after network co-option, and comment on some of the possible evolutionary consequences of network co-option. We place special emphasis on the need to consider selectively-neutral outcomes of network co-option to improve our understanding of the role of this mechanism in trait evolution.
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Jenni L, Ganz K, Milanesi P, Winkler R. Determinants and constraints of feather growth. PLoS One 2020; 15:e0231925. [PMID: 32330170 PMCID: PMC7182269 DOI: 10.1371/journal.pone.0231925] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/10/2019] [Accepted: 04/03/2020] [Indexed: 11/18/2022] Open
Abstract
During the periodic moult of the plumage of birds, a fast regrowth of feathers would shorten the time of reduced plumage functionality. However, it has long been known that feather growth-rate is limited and that long feathers take disproportionally longer to grow than small feathers, which has severe consequences on moult duration and the completeness of moult in large birds. The reasons for the limitations of feather-growth must be related to the size and/or functions of the feather follicle, but are largely unknown. Here we measured the size of the feather follicle (taking calamus width as a proxy) and related it to parameters of feather growth (feather growth-rate by mass and by length) and feather structure (feather length, mass, massiveness [mass of feather material per mm feather-length]). We used three independent datasets which allowed for interspecific analyses, and for intraspecific comparisons of differently structured feathers within the framework of biological scaling. We found that the cross-sectional area of the calamus (as a proxy of feather follicle size) was directly proportional to feather growth-rate by mass. Hence, factors acting at a two-dimensional scale (possibly nutrient supply to the growing feather) determines feather growth rate by mass, rather than the linear arrangement of stem cells (in a circular configuration) as had previously been assumed. Feather follicle size was correlated with both feather length and massiveness, hence it seems to be adapted to some extent to feather structure. Feather growth-rate by length was dependent on both the feather material produced per unit time (growth-rate by mass) and the amount of material deposited per unit feather-length. Follicle size not only determines feather growth-rate by mass, but also directly the structural design (shape, number of barbs, etc.) of a feather. Therefore, feather growth-rate is severely constrained by the requirements imposed by the structural feather design.
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Affiliation(s)
- Lukas Jenni
- Swiss Ornithological Institute, Sempach, Switzerland
- * E-mail:
| | - Kathrin Ganz
- Swiss Ornithological Institute, Sempach, Switzerland
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Filamentous Integuments in Nonavialan Theropods and Their Kin: Advances and Future Perspectives for Understanding the Evolution of Feathers. THE EVOLUTION OF FEATHERS 2020. [DOI: 10.1007/978-3-030-27223-4_5] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
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31
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Cooper RL, Lloyd VJ, Di-Poï N, Fletcher AG, Barrett PM, Fraser GJ. Conserved gene signalling and a derived patterning mechanism underlie the development of avian footpad scales. EvoDevo 2019; 10:19. [PMID: 31428299 PMCID: PMC6693258 DOI: 10.1186/s13227-019-0130-9] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/03/2019] [Accepted: 07/17/2019] [Indexed: 01/09/2023] Open
Abstract
Background Vertebrates possess a diverse range of integumentary epithelial appendages, including scales, feathers and hair. These structures share extensive early developmental homology, as they mostly originate from a conserved anatomical placode. In the context of avian epithelial appendages, feathers and scutate scales are known to develop from an anatomical placode. However, our understanding of avian reticulate (footpad) scale development remains unclear. Results Here, we demonstrate that reticulate scales develop from restricted circular domains of thickened epithelium, with localised conserved gene expression in both the epithelium and underlying mesenchyme. These domains constitute either anatomical placodes, or circular initiatory fields (comparable to the avian feather tract). Subsequent patterning of reticulate scales is consistent with reaction–diffusion (RD) simulation, whereby this primary domain subdivides into smaller secondary units, which produce individual scales. In contrast, the footpad scales of a squamate model (the bearded dragon, Pogona vitticeps) develop synchronously across the ventral footpad surface. Conclusions Widely conserved gene signalling underlies the initial development of avian reticulate scales. However, their subsequent patterning is distinct from the footpad scale patterning of a squamate model, and the feather and scutate scale patterning of birds. Therefore, we suggest reticulate scales are a comparatively derived epithelial appendage, patterned through a modified RD system. Electronic supplementary material The online version of this article (10.1186/s13227-019-0130-9) contains supplementary material, which is available to authorized users.
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Affiliation(s)
- Rory L Cooper
- 1Department of Animal and Plant Sciences, University of Sheffield, Sheffield, UK
| | - Victoria J Lloyd
- 1Department of Animal and Plant Sciences, University of Sheffield, Sheffield, UK
| | - Nicolas Di-Poï
- 2Program in Developmental Biology, Institute of Biotechnology, University of Helsinki, Helsinki, Finland
| | | | - Paul M Barrett
- 4Department of Earth Sciences, Natural History Museum, London, UK
| | - Gareth J Fraser
- 1Department of Animal and Plant Sciences, University of Sheffield, Sheffield, UK.,5Department of Biology, University of Florida, Gainesville, USA
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Mimar S, Juane MM, Park J, Muñuzuri AP, Ghoshal G. Turing patterns mediated by network topology in homogeneous active systems. Phys Rev E 2019; 99:062303. [PMID: 31330727 DOI: 10.1103/physreve.99.062303] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/12/2019] [Indexed: 06/10/2023]
Abstract
Mechanisms of pattern formation-of which the Turing instability is an archetype-constitute an important class of dynamical processes occurring in biological, ecological, and chemical systems. Recently, it has been shown that the Turing instability can induce pattern formation in discrete media such as complex networks, opening up the intriguing possibility of exploring it as a generative mechanism in a plethora of socioeconomic contexts. Yet much remains to be understood in terms of the precise connection between network topology and its role in inducing the patterns. Here we present a general mathematical description of a two-species reaction-diffusion process occurring on different flavors of network topology. The dynamical equations are of the predator-prey class that, while traditionally used to model species population, has also been used to model competition between antagonistic features in social contexts. We demonstrate that the Turing instability can be induced in any network topology by tuning the diffusion of the competing species or by altering network connectivity. The extent to which the emergent patterns reflect topological properties is determined by a complex interplay between the diffusion coefficients and the localization properties of the eigenvectors of the graph Laplacian. We find that networks with large degree fluctuations tend to have stable patterns over the space of initial perturbations, whereas patterns in more homogenous networks are purely stochastic.
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Affiliation(s)
- Sayat Mimar
- Department of Physics & Astronomy, University of Rochester, Rochester, New York 14607, USA
| | - Mariamo Mussa Juane
- Group of Nonlinear Physics, University of Santiago de Compostela, Santiago de Compostela 15782, Spain
| | - Juyong Park
- Graduate School of Culture Technology, Korea Advanced Institute of Science and Technology, Daejon 305-701, Korea
| | - Alberto P Muñuzuri
- Group of Nonlinear Physics, University of Santiago de Compostela, Santiago de Compostela 15782, Spain
| | - Gourab Ghoshal
- Department of Physics & Astronomy, University of Rochester, Rochester, New York 14607, USA
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33
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Magic Traits in Magic Fish: Understanding Color Pattern Evolution Using Reef Fish. Trends Genet 2019; 35:265-278. [DOI: 10.1016/j.tig.2019.01.006] [Citation(s) in RCA: 23] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/17/2018] [Revised: 01/23/2019] [Accepted: 01/25/2019] [Indexed: 12/24/2022]
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Konow C, Somberg NH, Chavez J, Epstein IR, Dolnik M. Turing patterns on radially growing domains: experiments and simulations. Phys Chem Chem Phys 2019; 21:6718-6724. [PMID: 30860212 DOI: 10.1039/c8cp07797e] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/01/2023]
Abstract
We study Turing pattern formation in a system undergoing radial growth in two dimensions. The photosensitive chlorine dioxide-iodine-malonic acid reaction is illuminated to inhibit patterning, with a growing non-illuminated circular domain in which the pattern develops. We examine the relationship between the linear radial growth rate and the resulting pattern morphology. Faster growth causes the pattern to form parallel to the growing boundary as concentric rings, while slower growth leads to pattern formation perpendicular to the growing boundary. We observe three distinct growth modes for the Turing patterns, which also depend on the radial growth rate. The experimental results are qualitatively reproduced in numerical simulations using the Lengyel-Epstein model with an additional term to account for the photosensitivity of the reaction. These results may provide new insight into how patterns form in growing biological systems.
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Affiliation(s)
- Christopher Konow
- Department of Chemistry, Brandeis University, MS 015, Waltham, MA 02454, USA.
| | - Noah H Somberg
- Department of Chemistry, Brandeis University, MS 015, Waltham, MA 02454, USA.
| | - Jocelyne Chavez
- Department of Chemistry and Biochemistry, New Mexico State University, MSC 3C, P.O. Box 30001, Las Cruces, NM 88003-8001, USA
| | - Irving R Epstein
- Department of Chemistry, Brandeis University, MS 015, Waltham, MA 02454, USA.
| | - Milos Dolnik
- Department of Chemistry, Brandeis University, MS 015, Waltham, MA 02454, USA.
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Cooper RL, Thiery AP, Fletcher AG, Delbarre DJ, Rasch LJ, Fraser GJ. An ancient Turing-like patterning mechanism regulates skin denticle development in sharks. SCIENCE ADVANCES 2018; 4:eaau5484. [PMID: 30417097 PMCID: PMC6221541 DOI: 10.1126/sciadv.aau5484] [Citation(s) in RCA: 37] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/22/2018] [Accepted: 10/12/2018] [Indexed: 05/02/2023]
Abstract
Vertebrates have a vast array of epithelial appendages, including scales, feathers, and hair. The developmental patterning of these diverse structures can be theoretically explained by Alan Turing's reaction-diffusion system. However, the role of this system in epithelial appendage patterning of early diverging lineages (compared to tetrapods), such as the cartilaginous fishes, is poorly understood. We investigate patterning of the unique tooth-like skin denticles of sharks, which closely relates to their hydrodynamic and protective functions. We demonstrate through simulation models that a Turing-like mechanism can explain shark denticle patterning and verify this system using gene expression analysis and gene pathway inhibition experiments. This mechanism bears remarkable similarity to avian feather patterning, suggesting deep homology of the system. We propose that a diverse range of vertebrate appendages, from shark denticles to avian feathers and mammalian hair, use this ancient and conserved system, with slight genetic modulation accounting for broad variations in patterning.
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Affiliation(s)
- Rory L. Cooper
- Department of Animal and Plant Sciences, University of Sheffield, Sheffield, UK
| | - Alexandre P. Thiery
- Department of Animal and Plant Sciences, University of Sheffield, Sheffield, UK
| | | | | | - Liam J. Rasch
- Department of Animal and Plant Sciences, University of Sheffield, Sheffield, UK
- Human Developmental Biology Resource, Institute of Child Health, University College, London, UK
| | - Gareth J. Fraser
- Department of Animal and Plant Sciences, University of Sheffield, Sheffield, UK
- Department of Biology, University of Florida, Gainesville, FL, USA
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Hoffmann J, Donoughe S, Li K, Salcedo MK, Rycroft CH. A simple developmental model recapitulates complex insect wing venation patterns. Proc Natl Acad Sci U S A 2018; 115:9905-9910. [PMID: 30224459 PMCID: PMC6176563 DOI: 10.1073/pnas.1721248115] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/14/2023] Open
Abstract
Insect wings are typically supported by thickened struts called veins. These veins form diverse geometric patterns across insects. For many insect species, even the left and right wings from the same individual have veins with unique topological arrangements, and little is known about how these patterns form. We present a large-scale quantitative study of the fingerprint-like "secondary veins." We compile a dataset of wings from 232 species and 17 families from the order Odonata (dragonflies and damselflies), a group with particularly elaborate vein patterns. We characterize the geometric arrangements of veins and develop a simple model of secondary vein patterning. We show that our model is capable of recapitulating the vein geometries of species from other, distantly related winged insect clades.
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Affiliation(s)
- Jordan Hoffmann
- Paulson School of Engineering and Applied Sciences, Harvard University, Cambridge, MA 02138
| | - Seth Donoughe
- Department of Molecular Genetics and Cell Biology, University of Chicago, Chicago, IL 60637;
| | - Kathy Li
- Applied Physics and Applied Mathematics Department, Columbia University, New York, NY 10027
| | - Mary K Salcedo
- Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, MA 02138
| | - Chris H Rycroft
- Paulson School of Engineering and Applied Sciences, Harvard University, Cambridge, MA 02138;
- Computational Research Division, Lawrence Berkeley Laboratory, Berkeley, CA 94720
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Pietak A, Levin M. Bioelectrical control of positional information in development and regeneration: A review of conceptual and computational advances. PROGRESS IN BIOPHYSICS AND MOLECULAR BIOLOGY 2018; 137:52-68. [PMID: 29626560 PMCID: PMC10464501 DOI: 10.1016/j.pbiomolbio.2018.03.008] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/10/2018] [Revised: 03/23/2018] [Accepted: 03/26/2018] [Indexed: 12/16/2022]
Abstract
Positional information describes pre-patterns of morphogenetic substances that alter spatio-temporal gene expression to instruct development of growth and form. A wealth of recent data indicate bioelectrical properties, such as the transmembrane potential (Vmem), are involved as instructive signals in the spatiotemporal regulation of morphogenesis. However, the mechanistic relationships between Vmem and molecular positional information are only beginning to be understood. Recent advances in computational modeling are assisting in the development of comprehensive frameworks for mechanistically understanding how endogenous bioelectricity can guide anatomy in a broad range of systems. Vmem represents an extraordinarily strong electric field (∼1.0 × 106 V/m) active over the thin expanse of the plasma membrane, with the capacity to influence a variety of downstream molecular signaling cascades. Moreover, in multicellular networks, intercellular coupling facilitated by gap junction channels may induce directed, electrodiffusive transport of charged molecules between cells of the network to generate new positional information patterning possibilities and characteristics. Given the demonstrated role of Vmem in morphogenesis, here we review current understanding of how Vmem can integrate with molecular regulatory networks to control single cell state, and the unique properties bioelectricity adds to transport phenomena in gap junction-coupled cell networks to facilitate self-assembly of morphogen gradients and other patterns. Understanding how Vmem integrates with biochemical regulatory networks at the level of a single cell, and mechanisms through which Vmem shapes molecular positional information in multicellular networks, are essential for a deep understanding of body plan control in development, regeneration and disease.
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Affiliation(s)
| | - Michael Levin
- Allen Discovery Center at Tufts, USA; Center for Regenerative and Developmental Biology, Tufts University, Medford, MA, USA
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38
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Vickrey AI, Bruders R, Kronenberg Z, Mackey E, Bohlender RJ, Maclary ET, Maynez R, Osborne EJ, Johnson KP, Huff CD, Yandell M, Shapiro MD. Introgression of regulatory alleles and a missense coding mutation drive plumage pattern diversity in the rock pigeon. eLife 2018; 7:e34803. [PMID: 30014848 PMCID: PMC6050045 DOI: 10.7554/elife.34803] [Citation(s) in RCA: 44] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/05/2018] [Accepted: 06/05/2018] [Indexed: 12/17/2022] Open
Abstract
Birds and other vertebrates display stunning variation in pigmentation patterning, yet the genes controlling this diversity remain largely unknown. Rock pigeons (Columba livia) are fundamentally one of four color pattern phenotypes, in decreasing order of melanism: T-check, checker, bar (ancestral), or barless. Using whole-genome scans, we identified NDP as a candidate gene for this variation. Allele-specific expression differences in NDP indicate cis-regulatory divergence between ancestral and melanistic alleles. Sequence comparisons suggest that derived alleles originated in the speckled pigeon (Columba guinea), providing a striking example of introgression. In contrast, barless rock pigeons have an increased incidence of vision defects and, like human families with hereditary blindness, carry start-codon mutations in NDP. In summary, we find that both coding and regulatory variation in the same gene drives wing pattern diversity, and post-domestication introgression supplied potentially advantageous melanistic alleles to feral populations of this ubiquitous urban bird.
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Affiliation(s)
- Anna I Vickrey
- School of Biological SciencesUniversity of UtahSalt Lake CityUnited States
| | - Rebecca Bruders
- School of Biological SciencesUniversity of UtahSalt Lake CityUnited States
| | - Zev Kronenberg
- Department of Human GeneticsUniversity of UtahSalt Lake CityUnited States
| | - Emma Mackey
- School of Biological SciencesUniversity of UtahSalt Lake CityUnited States
| | - Ryan J Bohlender
- Department of Epidemiology, MD Anderson Cancer CenterUniversity of TexasHoustonUnited States
| | - Emily T Maclary
- School of Biological SciencesUniversity of UtahSalt Lake CityUnited States
| | - Raquel Maynez
- School of Biological SciencesUniversity of UtahSalt Lake CityUnited States
| | - Edward J Osborne
- Department of Human GeneticsUniversity of UtahSalt Lake CityUnited States
| | - Kevin P Johnson
- Illinois Natural History Survey, Prairie Research InstituteUniversity of Illinois Urbana-ChampaignChampaignUnited States
| | - Chad D Huff
- Department of Epidemiology, MD Anderson Cancer CenterUniversity of TexasHoustonUnited States
| | - Mark Yandell
- Department of Human GeneticsUniversity of UtahSalt Lake CityUnited States
| | - Michael D Shapiro
- School of Biological SciencesUniversity of UtahSalt Lake CityUnited States
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Walton KD, Mishkind D, Riddle MR, Tabin CJ, Gumucio DL. Blueprint for an intestinal villus: Species-specific assembly required. WILEY INTERDISCIPLINARY REVIEWS. DEVELOPMENTAL BIOLOGY 2018; 7:e317. [PMID: 29513926 PMCID: PMC6002883 DOI: 10.1002/wdev.317] [Citation(s) in RCA: 31] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/17/2017] [Revised: 12/18/2017] [Accepted: 01/11/2018] [Indexed: 12/14/2022]
Abstract
Efficient absorption of nutrients by the intestine is essential for life. In mammals and birds, convolution of the intestinal surface into finger-like projections called villi is an important adaptation that ensures the massive surface area for nutrient contact that is required to meet metabolic demands. Each villus projection serves as a functional absorptive unit: it is covered by a simple columnar epithelium that is derived from endoderm and contains a mesodermally derived core with supporting vasculature, lacteals, enteric nerves, smooth muscle, fibroblasts, myofibroblasts, and immune cells. In cross section, the consistency of structure in the billions of individual villi of the adult intestine is strikingly beautiful. Villi are generated in fetal life, and work over several decades has revealed that villus morphogenesis requires substantial "crosstalk" between the endodermal and mesodermal tissue components, with soluble signals, cell-cell contacts, and mechanical forces providing specific dialects for sequential conversations that orchestrate villus assembly. A key part of this process is the formation of subepithelial mesenchymal cell clusters that act as signaling hubs, directing overlying epithelial cells to cease proliferation, thereby driving villus emergence and simultaneously determining the location of future stem cell compartments. Interestingly, distinct species-specific differences govern how and when tissue-shaping signals and forces generate mesenchymal clusters and control villus emergence. As the details of villus development become increasingly clear, the emerging picture highlights a sophisticated local self-assembled cascade that underlies the reproducible elaboration of a regularly patterned field of absorptive villus units. This article is categorized under: Vertebrate Organogenesis > From a Tubular Primordium: Non-Branched Comparative Development and Evolution > Organ System Comparisons Between Species Early Embryonic Development > Development to the Basic Body Plan.
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Affiliation(s)
- Katherine D Walton
- Department of Cell and Developmental Biology, University of Michigan, Ann Arbor, Michigan
| | - Darcy Mishkind
- Department of Genetics, Harvard Medical School, Boston, Massachusetts
| | - Misty R Riddle
- Department of Genetics, Harvard Medical School, Boston, Massachusetts
| | - Clifford J Tabin
- Department of Genetics, Harvard Medical School, Boston, Massachusetts
| | - Deborah L Gumucio
- Department of Cell and Developmental Biology, University of Michigan, Ann Arbor, Michigan
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40
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Yang J, Qu Y, Huang Y, Lei F. Dynamic transcriptome profiling towards understanding the morphogenesis and development of diverse feather in domestic duck. BMC Genomics 2018; 19:391. [PMID: 29793441 PMCID: PMC5968480 DOI: 10.1186/s12864-018-4778-7] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/22/2017] [Accepted: 05/10/2018] [Indexed: 11/14/2022] Open
Abstract
Background Feathers with complex and fine structure are hallmark avian integument appendages, which have contributed significantly to the survival and breeding for birds. Here, we aimed to explore the differentiation, morphogenesis and development of diverse feathers in the domestic duck. Results Transcriptome profiles of skin owing feather follicle from two body parts at three physiological stages were constructed to understand the molecular network and excavate the candidate genes associated with the development of plumulaceous and flight feather structures. The venn analysis of differentially expressed genes (DEGs) between abdomen and wing skin tissues at three developmental stages showed that 38 genes owing identical differentially expression pattern. Together, our data suggest that feather morphological and structural diversity can be possibly related to the homeobox proteins. The key series-clusters, many candidate biological processes and genes were identified for the morphogenesis, growth and development of two feather types. Through comparing the results of developmental transcriptomes from plumulaceous and flight feather, we found that DEGs belonging to the family of WNT, FGF and BMP have certain differences; even the consistent DEGs of skin and feather follicle transcriptomes from abdomen and wing have the different expression patterns. Conclusions Overall, this study detected many functional genes and showed differences in the molecular mechanisms of diverse feather developments. The findings in WNT, FGF and BMP, which were consistent with biological experiments, showed more possible complex modulations. A correlative role of HOX genes was also suggested but future biological verification experiments are required. This work provided valuable information for subsequent research on the morphogenesis of feathers. Electronic supplementary material The online version of this article (10.1186/s12864-018-4778-7) contains supplementary material, which is available to authorized users.
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Affiliation(s)
- Jing Yang
- Key Laboratory of the Zoological Systematics and Evolution, Institute of Zoology, the Chinese Academy of Sciences, Beijing, 100101, China.,School of Environmental Science and Engineering, Shaanxi University of Science and Technology, Xi'an, 710021, China.,Co-Innovation Center for Qinba Regions' Sustainable Development, School of Life Sciences, Shaanxi Normal University, Xi'an, 710062, China
| | - Yanhua Qu
- Key Laboratory of the Zoological Systematics and Evolution, Institute of Zoology, the Chinese Academy of Sciences, Beijing, 100101, China
| | - Yuan Huang
- Co-Innovation Center for Qinba Regions' Sustainable Development, School of Life Sciences, Shaanxi Normal University, Xi'an, 710062, China.
| | - Fumin Lei
- Key Laboratory of the Zoological Systematics and Evolution, Institute of Zoology, the Chinese Academy of Sciences, Beijing, 100101, China. .,Center for Excellence in Animal Evolution and Genetics, Chinese Academy of Sciences, Kunming, 650223, China.
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Cheng D, Yan X, Qiu G, Zhang J, Wang H, Feng T, Tian Y, Xu H, Wang M, He W, Wu P, Widelitz RB, Chuong CM, Yue Z. Contraction of basal filopodia controls periodic feather branching via Notch and FGF signaling. Nat Commun 2018; 9:1345. [PMID: 29632339 PMCID: PMC5890251 DOI: 10.1038/s41467-018-03801-z] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/16/2016] [Accepted: 03/13/2018] [Indexed: 11/21/2022] Open
Abstract
Branching morphogenesis is a general mechanism that increases the surface area of an organ. In chicken feathers, the flat epithelial sheath at the base of the follicle is transformed into periodic branches. How exactly the keratinocytes are organized into this pattern remains unclear. Here we show that in the feather follicle, the pre-branch basal keratinocytes have extensive filopodia, which contract and smooth out after branching. Manipulating the filopodia via small GTPases RhoA/Cdc42 also regulates branch formation. These basal filopodia help interpret the proximal-distal FGF gradient in the follicle. Furthermore, the topological arrangement of cell adhesion via E-Cadherin re-distribution controls the branching process. Periodic activation of Notch signaling drives the differential cell adhesion and contraction of basal filopodia, which occurs only below an FGF signaling threshold. Our results suggest a coordinated adjustment of cell shape and adhesion orchestrates feather branching, which is regulated by Notch and FGF signaling. Keratinocytes are organised into a periodic pattern in feather branching, but how this is regulated is unclear. Here, the authors show that there is a coordinated change in cell shape and adherence, mediated by Notch, FGF signalling and Rho GTPases, which in turn regulates feather branching.
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Affiliation(s)
- Dongyang Cheng
- Institute of Life Sciences, Fuzhou University, Fuzhou, Fujian, 350116, China
| | - Xiaoli Yan
- Institute of Life Sciences, Fuzhou University, Fuzhou, Fujian, 350116, China
| | - Guofu Qiu
- Institute of Life Sciences, Fuzhou University, Fuzhou, Fujian, 350116, China
| | - Juan Zhang
- Institute of Life Sciences, Fuzhou University, Fuzhou, Fujian, 350116, China
| | - Hanwei Wang
- Institute of Life Sciences, Fuzhou University, Fuzhou, Fujian, 350116, China
| | - Tingting Feng
- Institute of Life Sciences, Fuzhou University, Fuzhou, Fujian, 350116, China
| | - Yarong Tian
- Institute of Life Sciences, Fuzhou University, Fuzhou, Fujian, 350116, China
| | - Haiping Xu
- Department of Mathematics, Fuzhou University, Fuzhou, Fujian, 350116, China
| | - Meiqing Wang
- Department of Mathematics, Fuzhou University, Fuzhou, Fujian, 350116, China
| | - Wanzhong He
- National Institute of Biological Sciences (NIBS), Beijing, 102206, China
| | - Ping Wu
- Department of Pathology, University of Southern California, Los Angeles, CA, 90033, USA
| | - Randall B Widelitz
- Department of Pathology, University of Southern California, Los Angeles, CA, 90033, USA
| | - Cheng-Ming Chuong
- Department of Pathology, University of Southern California, Los Angeles, CA, 90033, USA
| | - Zhicao Yue
- Institute of Life Sciences, Fuzhou University, Fuzhou, Fujian, 350116, China.
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42
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Ishida K, Mitsui T. Role of the boundary in feather bud formation on one-dimensional bioengineered skin. APL Bioeng 2018; 2:016107. [PMID: 31069292 PMCID: PMC6481706 DOI: 10.1063/1.4989414] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/08/2017] [Accepted: 12/21/2017] [Indexed: 01/04/2023] Open
Abstract
The role of a boundary in pattern formation from a homogenous state in Turing's reaction–diffusion equations is important, particularly when the domain size is comparable to the pattern scale. Such experimental conditions may be achieved for in vitro regeneration of ectodermal appendages such as feathers, via reconstruction of embryonic single cells. This procedure can eliminate a predefined genetic map, such as the midline of chick feather bud formation, leaving uniformly distributed identical cells as a bioengineered skin. Here, the self-organizing nature of multiple feather bud formation was examined in bioengineered 1D-skin samples. Primal formation of feather buds occurred at a fixed length from the skin edge. This formation was numerically recapitulated by a standard two-component reaction-diffusion model, suggesting that the boundary effect caused this observation. The proper boundary conditions were nonstandard, either mixed Dirichlet–Neumann or partial-flux. In addition, the model implies imperfect or hindered bud formation as well as nearly equal distances between buds. In contrast, experimental observations indicated that the skin curvature, which was not included in our model, also strongly affected bud formation. Thus, bioengineered skin may provide an ideal template for modeling a self-organized process from a homogenous state. This study will examine the possible diffusion activities of activator or inhibitor molecular candidates and mechanical activities during cell aggregation, which will advance our understanding of skin appendage regeneration from pluripotent or embryonic stem cells.
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Affiliation(s)
- Kentaro Ishida
- Department of Physics and Mathematics, College of Science and Engineering, Aoyama Gakuin University, Kanagawa 252-5258, Japan
| | - Toshiyuki Mitsui
- Department of Physics and Mathematics, College of Science and Engineering, Aoyama Gakuin University, Kanagawa 252-5258, Japan
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43
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Kahata K, Dadras MS, Moustakas A. TGF-β Family Signaling in Epithelial Differentiation and Epithelial-Mesenchymal Transition. Cold Spring Harb Perspect Biol 2018; 10:cshperspect.a022194. [PMID: 28246184 DOI: 10.1101/cshperspect.a022194] [Citation(s) in RCA: 84] [Impact Index Per Article: 14.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
Epithelia exist in the animal body since the onset of embryonic development; they generate tissue barriers and specify organs and glands. Through epithelial-mesenchymal transitions (EMTs), epithelia generate mesenchymal cells that form new tissues and promote healing or disease manifestation when epithelial homeostasis is challenged physiologically or pathologically. Transforming growth factor-βs (TGF-βs), activins, bone morphogenetic proteins (BMPs), and growth and differentiation factors (GDFs) have been implicated in the regulation of epithelial differentiation. These TGF-β family ligands are expressed and secreted at sites where the epithelium interacts with the mesenchyme and provide paracrine queues from the mesenchyme to the neighboring epithelium, helping the specification of differentiated epithelial cell types within an organ. TGF-β ligands signal via Smads and cooperating kinase pathways and control the expression or activities of key transcription factors that promote either epithelial differentiation or mesenchymal transitions. In this review, we discuss evidence that illustrates how TGF-β family ligands contribute to epithelial differentiation and induce mesenchymal transitions, by focusing on the embryonic ectoderm and tissues that form the external mammalian body lining.
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Affiliation(s)
- Kaoru Kahata
- Ludwig Institute for Cancer Research, Science for Life Laboratory, Uppsala University, SE-751 24 Uppsala, Sweden
| | - Mahsa Shahidi Dadras
- Ludwig Institute for Cancer Research, Science for Life Laboratory, Uppsala University, SE-751 24 Uppsala, Sweden.,Department of Medical Biochemistry and Microbiology, Science for Life Laboratory, Uppsala University, SE-751 23 Uppsala, Sweden
| | - Aristidis Moustakas
- Ludwig Institute for Cancer Research, Science for Life Laboratory, Uppsala University, SE-751 24 Uppsala, Sweden.,Department of Medical Biochemistry and Microbiology, Science for Life Laboratory, Uppsala University, SE-751 23 Uppsala, Sweden
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44
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A chemotaxis model of feather primordia pattern formation during avian development. J Theor Biol 2018; 437:225-238. [DOI: 10.1016/j.jtbi.2017.10.026] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2017] [Revised: 10/17/2017] [Accepted: 10/25/2017] [Indexed: 11/21/2022]
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45
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Howard J, Garzon-Coral C. Physical Limits on the Precision of Mitotic Spindle Positioning by Microtubule Pushing forces: Mechanics of mitotic spindle positioning. Bioessays 2017; 39:10.1002/bies.201700122. [PMID: 28960439 PMCID: PMC5698852 DOI: 10.1002/bies.201700122] [Citation(s) in RCA: 34] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/11/2017] [Revised: 08/13/2017] [Indexed: 01/07/2023]
Abstract
Tissues are shaped and patterned by mechanical and chemical processes. A key mechanical process is the positioning of the mitotic spindle, which determines the size and location of the daughter cells within the tissue. Recent force and position-fluctuation measurements indicate that pushing forces, mediated by the polymerization of astral microtubules against- the cell cortex, maintain the mitotic spindle at the cell center in Caenorhabditis elegans embryos. The magnitude of the centering forces suggests that the physical limit on the accuracy and precision of this centering mechanism is determined by the number of pushing microtubules rather than by thermally driven fluctuations. In cells that divide asymmetrically, anti-centering, pulling forces generated by cortically located dyneins, in conjunction with microtubule depolymerization, oppose the pushing forces to drive spindle displacements away from the center. Thus, a balance of centering pushing forces and anti-centering pulling forces localize the mitotic spindles within dividing C. elegans cells.
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Affiliation(s)
- Jonathon Howard
- Department of Molecular Biophysics & Biochemistry, Yale University, New Haven, CT 06511, USA
| | - Carlos Garzon-Coral
- Shriram Center for Chemical Engineering & Bioengineering, Stanford University, CA 94305, USA
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46
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Isakova A, Novakovic K. Oscillatory chemical reactions in the quest for rhythmic motion of smart materials. Eur Polym J 2017. [DOI: 10.1016/j.eurpolymj.2017.08.033] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/24/2023]
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47
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Shao Y, Taniguchi K, Townshend RF, Miki T, Gumucio DL, Fu J. A pluripotent stem cell-based model for post-implantation human amniotic sac development. Nat Commun 2017; 8:208. [PMID: 28785084 PMCID: PMC5547056 DOI: 10.1038/s41467-017-00236-w] [Citation(s) in RCA: 159] [Impact Index Per Article: 22.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/12/2017] [Accepted: 06/12/2017] [Indexed: 01/24/2023] Open
Abstract
Development of the asymmetric amniotic sac-with the embryonic disc and amniotic ectoderm occupying opposite poles-is a vital milestone during human embryo implantation. Although essential to embryogenesis and pregnancy, amniotic sac development in humans remains poorly understood. Here, we report a human pluripotent stem cell (hPSC)-based model, termed the post-implantation amniotic sac embryoid (PASE), that recapitulates multiple post-implantation embryogenic events centered around amniotic sac development. Without maternal or extraembryonic tissues, the PASE self-organizes into an epithelial cyst with an asymmetric amniotic ectoderm-epiblast pattern that resembles the human amniotic sac. Upon further development, the PASE initiates a process that resembles posterior primitive streak development in a SNAI1-dependent manner. Furthermore, we observe asymmetric BMP-SMAD signaling concurrent with PASE development, and establish that BMP-SMAD activation/inhibition modulates stable PASE development. This study reveals a previously unrecognized fate potential of human pluripotent stem cells and provides a platform for advancing human embryology.Early in human embryonic development, it is unclear how amniotic sac formation is regulated. Here, the authors use a human pluripotent stem cell-based model, termed the post-implantation amniotic sac embryoid, to recapitulate early embryogenic events of human amniotic sac development.
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Affiliation(s)
- Yue Shao
- Department of Mechanical Engineering, University of Michigan, Ann Arbor, MI, 48109, USA
| | - Kenichiro Taniguchi
- Department of Cell and Developmental Biology, University of Michigan Medical School, Ann Arbor, MI, 48109, USA
| | - Ryan F Townshend
- Department of Cell and Developmental Biology, University of Michigan Medical School, Ann Arbor, MI, 48109, USA
| | - Toshio Miki
- Department of Biochemistry and Molecular Biology, Keck School of Medicine, University of Southern California, Los Angeles, CA, 90089, USA
| | - Deborah L Gumucio
- Department of Cell and Developmental Biology, University of Michigan Medical School, Ann Arbor, MI, 48109, USA.
| | - Jianping Fu
- Department of Mechanical Engineering, University of Michigan, Ann Arbor, MI, 48109, USA.
- Department of Cell and Developmental Biology, University of Michigan Medical School, Ann Arbor, MI, 48109, USA.
- Department of Biomedical Engineering, University of Michigan, Ann Arbor, MI, 48109, USA.
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48
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Diverse feather shape evolution enabled by coupling anisotropic signalling modules with self-organizing branching programme. Nat Commun 2017; 8:ncomms14139. [PMID: 28106042 PMCID: PMC5263876 DOI: 10.1038/ncomms14139] [Citation(s) in RCA: 31] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/08/2016] [Accepted: 12/01/2016] [Indexed: 02/04/2023] Open
Abstract
Adaptation of feathered dinosaurs and Mesozoic birds to new ecological niches was potentiated by rapid diversification of feather vane shapes. The molecular mechanism driving this spectacular process remains unclear. Here, through morphology analysis, transcriptome profiling, functional perturbations and mathematical simulations, we find that mesenchyme-derived GDF10 and GREM1 are major controllers for the topologies of rachidial and barb generative zones (setting vane boundaries), respectively, by tuning the periodic-branching programme of epithelial progenitors. Their interactions with the anterior-posterior WNT gradient establish the bilateral-symmetric vane configuration. Additionally, combinatory effects of CYP26B1, CRABP1 and RALDH3 establish dynamic retinoic acid (RA) landscapes in feather mesenchyme, which modulate GREM1 expression and epithelial cell shapes. Incremental changes of RA gradient slopes establish a continuum of asymmetric flight feathers along the wing, while switch-like modulation of RA signalling confers distinct vane shapes between feather tracts. Therefore, the co-option of anisotropic signalling modules introduced new dimensions of feather shape diversification.
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49
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Rubio CA. Traditional serrated adenomas and serrated carcinomas in carcinogen-treated rats. J Clin Pathol 2016; 70:301-307. [PMID: 27566816 DOI: 10.1136/jclinpath-2016-204037] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2016] [Revised: 08/01/2016] [Accepted: 08/03/2016] [Indexed: 01/23/2023]
Abstract
AIMS A recent review of archived sections from early experiments in rats showed neoplasias exhibiting serrated configurations. The aim was to assess the frequency of serrated neoplasias in the colon and small intestine of carcinogen-treated rats. METHODS While reviewing archival sections from early experiments in Sprague-Dawley (SD) and Fisher-344 (F-344) rats, we recently detected colonic and intestinal traditional serrated adenomas (displaying serrated or microtubular patterns) and serrated carcinomas. SD rats were injected 1,2-dimethylhydrazine (DMH) for 27 weeks whereas F-344 rats were fed with a pyrolysate (GLU-1) for 24 months. Filed sections from 358 colonic and small intestinal neoplasias were re-evaluated. RESULTS DMH-treated SD rats had 215 colonic neoplasias (1.4% were serrated adenomas, 7.9% microtubular adenomas, 2.8% serrated carcinomas and 2.8% microtubular carcinomas). GLU1-treated F-344 rats had 53 colonic neoplasias (1.9% were serrated adenomas and 20.8% microtubular adenomas), and 89 small intestinal neoplasias (1.1% were serrated adenomas, 42.7% microtubular adenomas and 6.7%, microtubular carcinomas). CONCLUSIONS DMH/SD-rats develop serrated and microtubular adenomas and carcinomas in the colon, whereas GLU1/F-344 rats develop microtubular adenomas in the colon and microtubular adenomas and carcinomas in the small intestine. The two rat-settings emerge as suitable models to study the molecular attributes of serrated and microtubular neoplasias under the standard conditions of the laboratory. This study is the first showing that a substantial number of serrated and particularly microtubular adenomas and carcinomas develop in the colon and small intestine of experimental rats. Importantly, serrated and microtubular neoplasias in rats recreate the histology of duodenal and colonic traditional serrated neoplasias in human beings.
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50
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Feo TJ, Simon E, Prum RO. Theory of the development of curved barbs and their effects on feather morphology. J Morphol 2016; 277:995-1013. [PMID: 27185293 DOI: 10.1002/jmor.20552] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/05/2015] [Revised: 04/04/2016] [Accepted: 04/07/2016] [Indexed: 11/05/2022]
Abstract
Feathers exhibit an extraordinary diversity of shapes, which are used by birds to accomplish a diverse set of functions. Pennaceous feathers have a double branched morphology that develops from a tube of epidermis, and variation in branch geometry determines feather shape. Feather development is both complex (i.e., a simple developmental modification can have multiple effects on mature feather shape), and redundant (i.e., different developmental modifications can create the same shape). Due to this, it is not readily apparent how different feather shapes develop. In many feathers, barbs are not straight, but instead curve in toward, or away, from the feather tip. Barb curvature can affect the shape of mature feathers but the development of curved barbs is unknown. Previous research has hypothesized that barb curvature could develop either during the helical growth of barb ridges in the tubular feather germ, or during barb angle expansion as the feather unfurls from the sheath. To better understand the development of curved barbs and their effects on mature feathers we present a theoretical model of curved barb development and test the model with empirical investigations of feathers. We find that curved barbs affect many aspects of feather morphology including vane width, barb length, and barb spacing. In real feathers, curved barbs can develop both during helical barb ridge growth and during barb angle expansion, with most of the observed curvature due to barb angle expansion. Our results demonstrate that barb angle expansion as a feather unfurls from the sheath is a complex and dynamic process that plays an important role in determining the shape and structure of mature feathers. Curved barbs create heterogeneity in barb geometry within the feather vane, which could have important implications for aerodynamic function and the development of within feather pigmentation patterns. J. Morphol. 277:995-1013, 2016. © 2016 Wiley Periodicals, Inc.
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Affiliation(s)
- Teresa J Feo
- Department of Ecology and Evolutionary Biology, Yale University, New Haven, Connecticut.,Peabody Museum of Natural History, Yale University, New Haven, Connecticut
| | - Emma Simon
- Department of Ecology and Evolutionary Biology, Yale University, New Haven, Connecticut
| | - Richard O Prum
- Department of Ecology and Evolutionary Biology, Yale University, New Haven, Connecticut.,Peabody Museum of Natural History, Yale University, New Haven, Connecticut
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