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Quiroga-Carmona M, Teta P, D’Elía G. The skull variation of the olive field mouse Abrothrix olivacea (Cricetidae: Abrotrichini) is localized and correlated to the ecogeographic features of its geographic distribution. PeerJ 2023; 11:e15200. [PMID: 37077313 PMCID: PMC10108858 DOI: 10.7717/peerj.15200] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/03/2022] [Accepted: 03/17/2023] [Indexed: 04/21/2023] Open
Abstract
The relationship between phenotypic variation and landscape heterogeneity has been extensively studied to understand how the environment influences patterns of morphological variation and differentiation of populations. Several studies had partially addressed intraspecific variation in the sigmodontine rodent Abrothrix olivacea, focusing on the characterization of physiological aspects and cranial variation. However, these had been conducted based on geographically restricted populational samples, and in most cases, the aspects characterized were not explicitly contextualized with the environmental configurations in which the populations occurred. Here, the cranial variation of A. olivacea was characterized by recording twenty cranial measurements in 235 individuals from 64 localities in Argentina and Chile, which widely cover the geographic and environmental distribution of this species. The morphological variation was analyzed and ecogeographically contextualized using multivariate statistical analyses, which also included climatic and ecological variation at the localities where the individuals were sampled. Results indicate that the cranial variation of this species is mostly clustered in localized patterns associated to the types of environments, and that the levels of cranial differentiation are higher among the populations from arid and treeless zones. Additionally, the ecogeographical association of cranial size variation indicate that this species does not follow Bergmann's rule and that island populations exhibit larger cranial sizes compared to their continental counterparts distributed at the same latitudes. These results suggest that cranial differentiation among the populations of this species is not homogeneous throughout its geographic distribution, and that the patterns of morphological differentiation are also not completely consistent with the patterns of genetic structuring that have been described recently. Finally, the analyses performed to ponder morphological differentiation among populations suggest that the contribution of genetic drift in the formation of these patterns can be ruled out among Patagonian populations, and that the selective effect imposed by the environment could better explain them.
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Affiliation(s)
- Marcial Quiroga-Carmona
- Instituto de Ciencias Ambientales y Evolutivas, Facultad de Ciencias, Universidad Austral de Chile, Valdivia, Región de los Ríos, Chile
- Colección de Mamíferos, Facultad de Ciencias, Universidad Austral de Chile, Valdivia, Región de los Ríos, Chile
- School of Biological Sciences, University of Nebraska—Lincoln, Lincoln, Nebraska, United States
| | - Pablo Teta
- División de Mastozoología, Museo Argentino de Ciencias Naturales “Bernardino Rivadavia”, Buenos Aires, Buenos Aires, Argentina
| | - Guillermo D’Elía
- Instituto de Ciencias Ambientales y Evolutivas, Facultad de Ciencias, Universidad Austral de Chile, Valdivia, Región de los Ríos, Chile
- Colección de Mamíferos, Facultad de Ciencias, Universidad Austral de Chile, Valdivia, Región de los Ríos, Chile
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2
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Quiroga-Carmona M, D’Elía G. Climate influences the genetic structure and niche differentiation among populations of the olive field mouse Abrothrix olivacea (Cricetidae: Abrotrichini). Sci Rep 2022; 12:22395. [PMID: 36575268 PMCID: PMC9794701 DOI: 10.1038/s41598-022-26937-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/08/2022] [Accepted: 12/22/2022] [Indexed: 12/28/2022] Open
Abstract
Even when environmental variation over time and space is commonly considered as an important driver of population divergence, few evaluations of intraspecific genetic variation explicitly assess whether observed structure has been caused by or is correlated with landscape heterogeneity. Several phylogeographic studies have characterized the mitochondrial diversity of Abrothrix olivacea, but none has incorporated landscape genetics analyses and ecological niche modeling, leaving a gap in the understanding of the species evolutionary history. Here, these aspects were addressed based on 186 single nucleotide polymorphisms, extracted from sequences of 801 bp of Cytb gene, gathered from 416 individuals collected at 103 localities in Argentina and Chile. Employing multivariate statistical analyses (gPCA, Mantel and Partial Mantel Tests, Procrustes Analysis, and RDA), associations between genetic differences and geographic and climatic distances were evaluated. Presence data was employed to estimate the potential geographic distribution of this species during historical and contemporary climatic scenarios, and to address differences among the climatic niches of their main mitochondrial lineages. The significant influence of landscape features in structuring mitochondrial variability was evidenced at different spatial scales, as well as the role of past climatic dynamics in driving geographic range shifts, mostly associated to Quaternary glaciations. Overall, these results suggest that throughout geographic range gene flow is unevenly influenced by climatic dissimilarity and the geographic distancing, and that studied lineages do not exhibit distributional signals of climatic niche conservatism. Additionally, genetic differentiation occurred by more complex evolutionary processes than mere disruption of gene flow or drift.
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Affiliation(s)
- Marcial Quiroga-Carmona
- grid.7119.e0000 0004 0487 459XInstituto de Ciencias Ambientales y Evolutivas, Facultad de Ciencias, Universidad Austral de Chile, Campus Isla Teja, Valdivia, Chile ,grid.7119.e0000 0004 0487 459XColección de Mamíferos, Facultad de Ciencias, Universidad Austral de Chile, Campus Isla Teja, Valdivia, Chile ,grid.24434.350000 0004 1937 0060School of Biological Sciences, University of Nebraska, Lincoln, USA
| | - Guillermo D’Elía
- grid.7119.e0000 0004 0487 459XInstituto de Ciencias Ambientales y Evolutivas, Facultad de Ciencias, Universidad Austral de Chile, Campus Isla Teja, Valdivia, Chile ,grid.7119.e0000 0004 0487 459XColección de Mamíferos, Facultad de Ciencias, Universidad Austral de Chile, Campus Isla Teja, Valdivia, Chile
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3
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Ruperto EF, Taraborelli PA, Menéndez J, Sassi PL. Behavioral plasticity in two endemic rodents from the Andes Mountains: strategies for thermal and energetic balance. Mamm Biol 2022. [DOI: 10.1007/s42991-022-00263-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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4
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Yawitz TA, Barts N, Kohl KD. Comparative digestive morphology and physiology of five species of Peromyscus under controlled environment and diet. Comp Biochem Physiol A Mol Integr Physiol 2022; 271:111265. [PMID: 35760269 DOI: 10.1016/j.cbpa.2022.111265] [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: 12/14/2021] [Revised: 06/22/2022] [Accepted: 06/22/2022] [Indexed: 10/17/2022]
Abstract
Digestive morphology and physiology differ across animal species, with many comparative studies uncovering relationships between animal ecology or diet, and the morphology and physiology of the gastrointestinal tract. However, many of these studies compare wild-caught animals feeding on uncontrolled diets and compare broadly related taxa. Thus, few studies have disentangled the phenotypic consequences of genetics from those potentially caused by the environment, especially across closely related species that occupy similar ecological niches. Here, we examined differences in digestive morphology and physiology of five closely related species of Peromyscus mice that were captive bred under identical environmental conditions and identical diets for multiple generations. Using phylogenetic generalized least squares (PGLS) of species means to control for body size, we identified a phylogenetic signal in the mass of the foregut and length of the small intestine across species. As proportions of total gut mass, we identified phylogenetic signals in relative foregut and small intestine masses, indicating that the sizes of these structures are more similar among closely related species. Finally, we detected differences in activities of the protease aminopeptidase-N enzyme across species. Overall, we demonstrate fine-scale differences in digestive morphology and physiology among closely related species. Our results suggest that Peromyscus could provide a system for future studies to explore the interplay between natural history, morphology, and physiology (e.g. ecomorphology and ecophysiology), and to investigate the genetic architecture that underlies gut anatomy.
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Affiliation(s)
- Tate A Yawitz
- Department of Biological Sciences, University of Pittsburgh, 4249 Fifth Avenue, Pittsburgh, PA 15260, USA
| | - Nick Barts
- Department of Biological Sciences, University of Pittsburgh, 4249 Fifth Avenue, Pittsburgh, PA 15260, USA
| | - Kevin D Kohl
- Department of Biological Sciences, University of Pittsburgh, 4249 Fifth Avenue, Pittsburgh, PA 15260, USA.
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5
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Quiroga-Carmona M, Abud C, Lessa EP, D’Elía G. The Mitochondrial Genetic Diversity of the Olive Field Mouse Abrothrix olivacea (Cricetidae; Abrotrichini) is Latitudinally Structured Across Its Geographic Distribution. J MAMM EVOL 2022. [DOI: 10.1007/s10914-021-09582-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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6
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Ghilardi M, Schiettekatte NMD, Casey JM, Brandl SJ, Degregori S, Mercière A, Morat F, Letourneur Y, Bejarano S, Parravicini V. Phylogeny, body morphology, and trophic level shape intestinal traits in coral reef fishes. Ecol Evol 2021; 11:13218-13231. [PMID: 34646464 PMCID: PMC8495780 DOI: 10.1002/ece3.8045] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/05/2021] [Revised: 08/02/2021] [Accepted: 08/04/2021] [Indexed: 01/24/2023] Open
Abstract
Trait-based approaches are increasingly used to study species assemblages and understand ecosystem functioning. The strength of these approaches lies in the appropriate choice of functional traits that relate to the functions of interest. However, trait-function relationships are often supported by weak empirical evidence.Processes related to digestion and nutrient assimilation are particularly challenging to integrate into trait-based approaches. In fishes, intestinal length is commonly used to describe these functions. Although there is broad consensus concerning the relationship between fish intestinal length and diet, evolutionary and environmental forces have shaped a diversity of intestinal morphologies that is not captured by length alone.Focusing on coral reef fishes, we investigate how evolutionary history and ecology shape intestinal morphology. Using a large dataset encompassing 142 species across 31 families collected in French Polynesia, we test how phylogeny, body morphology, and diet relate to three intestinal morphological traits: intestinal length, diameter, and surface area.We demonstrate that phylogeny, body morphology, and trophic level explain most of the interspecific variability in fish intestinal morphology. Despite the high degree of phylogenetic conservatism, taxonomically unrelated herbivorous fishes exhibit similar intestinal morphology due to adaptive convergent evolution. Furthermore, we show that stomachless, durophagous species have the widest intestines to compensate for the lack of a stomach and allow passage of relatively large undigested food particles.Rather than traditionally applied metrics of intestinal length, intestinal surface area may be the most appropriate trait to characterize intestinal morphology in functional studies.
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Affiliation(s)
- Mattia Ghilardi
- Reef Systems Research GroupDepartment of EcologyLeibniz Centre for Tropical Marine Research (ZMT)BremenGermany
- Department of Marine EcologyFaculty of Biology and ChemistryUniversity of BremenBremenGermany
- PSL Université Paris: EPHE‐UPVD‐CNRSUSR3278 CRIOBEPerpignanFrance
- Laboratoire d’Excellence “CORAIL”PerpignanFrance
| | - Nina M. D. Schiettekatte
- PSL Université Paris: EPHE‐UPVD‐CNRSUSR3278 CRIOBEPerpignanFrance
- Laboratoire d’Excellence “CORAIL”PerpignanFrance
| | - Jordan M. Casey
- PSL Université Paris: EPHE‐UPVD‐CNRSUSR3278 CRIOBEPerpignanFrance
- Laboratoire d’Excellence “CORAIL”PerpignanFrance
- Department of Marine ScienceMarine Science InstituteUniversity of Texas at AustinPort AransasTXUSA
| | - Simon J. Brandl
- PSL Université Paris: EPHE‐UPVD‐CNRSUSR3278 CRIOBEPerpignanFrance
- Laboratoire d’Excellence “CORAIL”PerpignanFrance
- Department of Marine ScienceMarine Science InstituteUniversity of Texas at AustinPort AransasTXUSA
- CESABCentre for the Synthesis and Analysis of BiodiversityInstitut Bouisson BertrandMontpellierFrance
| | - Samuel Degregori
- Department of Ecology and Evolutionary BiologyUniversity of California Los AngelesLos AngelesCAUSA
| | - Alexandre Mercière
- PSL Université Paris: EPHE‐UPVD‐CNRSUSR3278 CRIOBEPerpignanFrance
- Laboratoire d’Excellence “CORAIL”PerpignanFrance
| | - Fabien Morat
- PSL Université Paris: EPHE‐UPVD‐CNRSUSR3278 CRIOBEPerpignanFrance
- Laboratoire d’Excellence “CORAIL”PerpignanFrance
| | - Yves Letourneur
- Laboratoire d’Excellence “CORAIL”PerpignanFrance
- UMR ENTROPIE (UR‐IRD‐CNRS‐IFREMER‐UNC)Université de la Nouvelle‐CalédonieNouméa CedexNew Caledonia
| | - Sonia Bejarano
- Reef Systems Research GroupDepartment of EcologyLeibniz Centre for Tropical Marine Research (ZMT)BremenGermany
| | - Valeriano Parravicini
- PSL Université Paris: EPHE‐UPVD‐CNRSUSR3278 CRIOBEPerpignanFrance
- Laboratoire d’Excellence “CORAIL”PerpignanFrance
- Institut Universitaire de FranceParisFrance
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7
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Taxonomic revision of the populations assigned to Octodon degus (Hystricomorpha: Octodontidae): With the designation of a neotype for Sciurus degus G. I. Molina, 1782 and the description of a new subspecies. ZOOL ANZ 2021. [DOI: 10.1016/j.jcz.2021.02.008] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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8
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Valdez L, D’Elía G. Genetic Diversity and Demographic History of the Shaggy Soft-Haired Mouse Abrothrix hirta (Cricetidae; Abrotrichini). Front Genet 2021; 12:642504. [PMID: 33841502 PMCID: PMC8024643 DOI: 10.3389/fgene.2021.642504] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/16/2020] [Accepted: 01/28/2021] [Indexed: 11/13/2022] Open
Abstract
Genetic information on species can inform decision making regarding conservation of biodiversity since the response of organisms to changing environments depend, in part, on their genetic makeup. Territories of central-southern Chile and Argentina have undergone a varying degree of impact during the Quaternary, where the response of local fauna and flora was rather species-specific. Here, we focus on the sigmodontine rodent Abrothrix hirta, distributed from 35° S in Chile and Argentina to northern Tierra del Fuego. Based on 119,226 transcriptome-derived SNP loci from 46 individuals of A. hirta, we described the geographic distribution of the genetic diversity of this species using a maximum likelihood tree, principal component and admixture analyses. We also addressed the demographic history of the main intraspecific lineages of A. hirta using GADMA. We found that A. hirta exhibited four allopatric intraspecific lineages. Three main genetic groups were identified by a Principal Component Analysis and by Ancestry analysis. The demographic history of A. hirta was characterized by recent population stability for populations at the northernmost part of the range, while southern populations experienced a recent population expansion.
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Affiliation(s)
- Lourdes Valdez
- Instituto de Ciencias Ambientales y Evolutivas, Facultad de Ciencias, Universidad Austral de Chile, Valdivia, Chile
| | - Guillermo D’Elía
- Instituto de Ciencias Ambientales y Evolutivas, Facultad de Ciencias, Universidad Austral de Chile, Valdivia, Chile
- Colección de Mamíferos, Facultad de Ciencias, Universidad Austral de Chile, Valdivia, Chile
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9
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Chuluunbaatar T, Ichii O, Nakamura T, Irie T, Namba T, Islam MR, Otani Y, Masum MA, Okamatsu-Ogura Y, Elewa YHA, Kon Y. Unique Running Pattern and Mucosal Morphology Found in the Colon of Cotton Rats. Front Physiol 2020; 11:587214. [PMID: 33192600 PMCID: PMC7649294 DOI: 10.3389/fphys.2020.587214] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/25/2020] [Accepted: 10/05/2020] [Indexed: 12/31/2022] Open
Abstract
Cotton rats are one of the experimental rodents used for testing different infectious and non-infectious diseases, including gastrointestinal tract pathology. However, their intestinal morphological characteristics are still poorly understood. Here, we clarified the anatomical and histological characteristics of the cecum and ascending colon (AC) of young (1–3-month old), adult (4–6-month old), and old (10–12-month old) cotton rats. The large intestine (LI) in cotton rats is composed of the cecum, AC, transverse and descending colons, and rectum, and is similar to that of other mammals. The AC begins with a double or triple spiral loop-like flexure (SLLF) and ends with a coupled horseshoe-like flexure (HSLF). A single longitudinal mucosal fold (SLMF) was found at the beginning of the AC along the mesentery line and developed with age. Furthermore, the SLMF contained several lymphatic nodules (LNs), indicating their role in digestive and immunological functions. Small and large protuberant LNs were found in the cecum and SLLF, respectively, whereas thin and flat LNs were observed in the HSLF and transverse colon, respectively. Regarding sex-related differences, adult females had a significantly longer AC with a higher number of SLLFs compared to males. The SLMF length and LN number were also longer and higher, respectively, in adult females compared to adult males. These are crucial findings, indicating the presence of sex-related differences in the morphology of the LI in cotton rats, and ours is the first study to discover a sex difference in the mammalian LI lining. Our study clarified the unique morphology of the LI in cotton rats, which could serve as the principal model for elucidating species-specific digestive tract functions and gastrointestinal disorders.
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Affiliation(s)
- Tsolmon Chuluunbaatar
- Laboratory of Anatomy, Department of Basic Veterinary Sciences, Faculty of Veterinary Medicine, Hokkaido University, Sapporo, Japan.,Department of Basic Science of Veterinary Medicine, School of Veterinary Medicine, Mongolian University of Life Science, Ulaanbaatar, Mongolia
| | - Osamu Ichii
- Laboratory of Anatomy, Department of Basic Veterinary Sciences, Faculty of Veterinary Medicine, Hokkaido University, Sapporo, Japan.,Laboratory of Agrobiomedical Science, Faculty of Agriculture, Hokkaido University, Sapporo, Japan
| | - Teppei Nakamura
- Laboratory of Anatomy, Department of Basic Veterinary Sciences, Faculty of Veterinary Medicine, Hokkaido University, Sapporo, Japan.,Department of Biological Safety Research, Chitose Laboratory, Japan Food Research Laboratories, Chitose, Japan
| | - Takao Irie
- Medical Zoology Group, Department of Infectious Diseases, Hokkaido Institute of Public Health, Sapporo, Japan.,Laboratory of Veterinary Parasitic Diseases, Department of Veterinary Sciences, Faculty of Agriculture, University of Miyazaki, Miyazaki, Japan
| | - Takashi Namba
- Laboratory of Anatomy, Department of Basic Veterinary Sciences, Faculty of Veterinary Medicine, Hokkaido University, Sapporo, Japan
| | - Md Rashedul Islam
- Laboratory of Anatomy, Department of Basic Veterinary Sciences, Faculty of Veterinary Medicine, Hokkaido University, Sapporo, Japan.,Department of Surgery and Theriogenology, Faculty of Animal Science and Veterinary Medicine, Sher-e-Bangla Agricultural University, Dhaka, Bangladesh
| | - Yuki Otani
- Laboratory of Anatomy, Department of Basic Veterinary Sciences, Faculty of Veterinary Medicine, Hokkaido University, Sapporo, Japan
| | - Md Abdul Masum
- Laboratory of Anatomy, Department of Basic Veterinary Sciences, Faculty of Veterinary Medicine, Hokkaido University, Sapporo, Japan.,Department of Anatomy, Histology and Physiology, Faculty of Animal Science and Veterinary Medicine, Sher-e-Bangla Agricultural University, Dhaka, Bangladesh
| | - Yuko Okamatsu-Ogura
- Laboratory of Biochemistry, Department of Basic Veterinary Sciences, Faculty of Veterinary Medicine, Hokkaido University, Sapporo, Japan
| | - Yaser Hosny Ali Elewa
- Laboratory of Anatomy, Department of Basic Veterinary Sciences, Faculty of Veterinary Medicine, Hokkaido University, Sapporo, Japan.,Department of Histology, Faculty of Veterinary Medicine, Zagazig University, Zagazig, Egypt
| | - Yasuhiro Kon
- Laboratory of Anatomy, Department of Basic Veterinary Sciences, Faculty of Veterinary Medicine, Hokkaido University, Sapporo, Japan
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10
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Affiliation(s)
- Luis D. Verde Arregoitia
- Instituto de Ciencias Ambientales y Evolutivas Universidad Austral de Chile Campus Isla Teja Valdivia CP 5090000 Chile
| | - Guillermo D’Elía
- Instituto de Ciencias Ambientales y Evolutivas Universidad Austral de Chile Campus Isla Teja Valdivia CP 5090000 Chile
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11
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Giorello FM, Feijoo M, D'Elía G, Naya DE, Valdez L, Opazo JC, Lessa EP. An association between differential expression and genetic divergence in the Patagonian olive mouse (Abrothrix olivacea). Mol Ecol 2018; 27:3274-3286. [PMID: 29940092 DOI: 10.1111/mec.14778] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/13/2017] [Revised: 05/30/2018] [Accepted: 05/31/2018] [Indexed: 12/19/2022]
Abstract
Recent molecular studies have found striking differences between desert-adapted species and model mammals regarding water conservation. In particular, aquaporin 4, a classical gene involved in water regulation of model species, is absent or not expressed in the kidneys of desert-adapted species. To further understand the molecular response to water availability, we studied the Patagonian olive mouse Abrothrix olivacea, a species with an unusually broad ecological tolerance that exhibits a great urine concentration capability. The species is able to occupy both the arid Patagonian steppe and the Valdivian and Magellanic forests. We sampled 95 olive mouse specimens from four localities (two in the steppe and two in the forests) and analysed both phenotypic variables and transcriptomic data to investigate the response of this species to the contrasting environmental conditions. The relative size of the kidney and the ratio of urine to plasma concentrations were, as expected, negatively correlated with annual rainfall. Expression analyses uncovered nearly 3,000 genes that were differentially expressed between steppe and forest samples and indicated that this species resorts to the "classical" gene pathways for water regulation. Differential expression across biomes also involves genes that involved in immune and detoxification functions. Overall, genes that were differentially expressed showed a slight tendency to be more divergent and to display an excess of intermediate allele frequencies, relative to the remaining loci. Our results indicate that both differential expression in pathways involved in water conservation and geographical allelic variation are important in the occupation of contrasting habitats by the Patagonian olive mouse.
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Affiliation(s)
- Facundo M Giorello
- Departamento de Ecología y Evolución, Facultad de Ciencias, Universidad de la República, Montevideo, Uruguay
- Espacio de Biología Vegetal del Noreste, Centro Universitario de Tacuarembó, Universidad de la República, Tacuarembó, Uruguay
| | - Matias Feijoo
- Departamento de Ecología y Evolución, Facultad de Ciencias, Universidad de la República, Montevideo, Uruguay
| | - Guillermo D'Elía
- Instituto de Ciencias Ambientales y Evolutivas, Universidad Austral de Chile, Valdivia, Chile
| | - Daniel E Naya
- Departamento de Ecología y Evolución, Facultad de Ciencias, Universidad de la República, Montevideo, Uruguay
| | - Lourdes Valdez
- Instituto de Ciencias Ambientales y Evolutivas, Universidad Austral de Chile, Valdivia, Chile
| | - Juan C Opazo
- Instituto de Ciencias Ambientales y Evolutivas, Universidad Austral de Chile, Valdivia, Chile
| | - Enrique P Lessa
- Departamento de Ecología y Evolución, Facultad de Ciencias, Universidad de la República, Montevideo, Uruguay
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12
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Characterization of the kidney transcriptome of the long-haired mouse Abrothrix hirta (Rodentia, Sigmodontinae) and comparison with that of the olive mouse A. olivacea. PLoS One 2015; 10:e0121148. [PMID: 25860131 PMCID: PMC4393222 DOI: 10.1371/journal.pone.0121148] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/17/2014] [Accepted: 02/06/2015] [Indexed: 11/19/2022] Open
Abstract
To understand how small mammals cope with the challenge of water homeostasis is a matter of interest for ecologists and evolutionary biologists. Here we take a step towards the understanding of the transcriptomic functional response of kidney using as a model the long-haired mouse (Abrothrix hirta) a species that distributes across Patagonian steppes and Austral temperate rainforests in Argentina and Chile. Specifically, we i) characterize the renal transcriptome of A. hirta, and ii) compare it with that-already available-of the co-generic and co-distributed A. olivacea. Renal mRNA transcripts from 16 specimens of A. hirta from natural populations were analyzed. Over 500 million Illumina paired-end reads were assembled de novo under two approaches, an individual assembly for each specimen, and a single in-silico normalized joint assembly including all reads from all specimens. The total number of annotated genes was similar with both strategies: an average of 14,956 in individual assemblies and 14,410 in the joint assembly. Overall, 15,463 distinct genes express in the kidney of A. hirta. Transcriptomes of A. hirta and A. olivacea were similar in terms of gene abundance and composition: 95.6% of the genes of A. hirta were also found in A. olivacea making their functional profiles also similar. However, differences in the transcriptome of these two species were observed in the set of highly expressed genes, in terms of private genes for each species and the functional profiles of highly expressed genes. As part of the novel transcriptome characterization, we provide distinct gene lists with their functional annotation that would constitute the basis for further research on these or any other species of the subfamily Sigmodontinae, which includes about 400 living species distributed from Tierra del Fuego to southern United States.
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