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Sakarin S, Rungsipipat A, Roytrakul S, Jaresitthikunchai J, Phaonakrop N, Charoenlappanit S, Thaisakun S, Surachetpong S. Phosphoproteomics analysis of serum from dogs affected with pulmonary hypertension secondary to degenerative mitral valve disease. PeerJ 2024; 12:e17186. [PMID: 38708342 PMCID: PMC11067895 DOI: 10.7717/peerj.17186] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/13/2023] [Accepted: 03/11/2024] [Indexed: 05/07/2024] Open
Abstract
Pulmonary hypertension (PH), a common complication in dogs affected by degenerative mitral valve disease (DMVD), is a progressive disorder characterized by increased pulmonary arterial pressure (PAP) and pulmonary vascular remodeling. Phosphorylation of proteins, impacting vascular function and cell proliferation, might play a role in the development and progression of PH. Unlike gene or protein studies, phosphoproteomic focuses on active proteins that function as end-target proteins within signaling cascades. Studying phosphorylated proteins can reveal active contributors to PH development. Early diagnosis of PH is crucial for effective management and improved clinical outcomes. This study aimed to identify potential serum biomarkers for diagnosing PH in dogs affected with DMVD using a phosphoproteomic approach. Serum samples were collected from healthy control dogs (n = 28), dogs with DMVD (n = 24), and dogs with DMVD and PH (n = 29). Phosphoproteins were enriched from the serum samples and analyzed using liquid chromatography-tandem mass spectrometry (LC-MS/MS). Data analysis was performed to identify uniquely expressed phosphoproteins in each group and differentially expressed phosphoproteins among groups. Phosphoproteomic analysis revealed nine uniquely expressed phosphoproteins in the serum of dogs in the DMVD+PH group and 15 differentially upregulated phosphoproteins in the DMVD+PH group compared to the DMVD group. The phosphoproteins previously implicated in PH and associated with pulmonary arterial remodeling, including small nuclear ribonucleoprotein G (SNRPG), alpha-2-macroglobulin (A2M), zinc finger and BTB domain containing 42 (ZBTB42), hemopexin (HPX), serotransferrin (TRF) and complement C3 (C3), were focused on. Their unique expression and differential upregulation in the serum of DMVD dogs with PH suggest their potential as biomarkers for PH diagnosis. In conclusion, this phosphoproteomic study identified uniquely expressed and differentially upregulated phosphoproteins in the serum of DMVD dogs with PH. Further studies are warranted to validate the diagnostic utility of these phosphoproteins.
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Affiliation(s)
- Siriwan Sakarin
- Department of Veterinary Medicine, Faculty of Veterinary Science, Chulalongkorn University, Bangkok, Thailand, Bangkok, Thailand
| | - Anudep Rungsipipat
- Center of Excellence for Companion Animal Cancer, Department of Pathology, Faculty of Veterinary Science, Chulalongkorn University, Bangkok, Thailand, Bangkok, Thailand
| | - Sittiruk Roytrakul
- Functional Proteomics Technology Laboratory, National Center for Genetic Engineering and Biotechnology (BIOTEC), National Science and Technology Development Agency, Pathum Thani, Thailand, Bangkok, Thailand
| | - Janthima Jaresitthikunchai
- Functional Proteomics Technology Laboratory, National Center for Genetic Engineering and Biotechnology (BIOTEC), National Science and Technology Development Agency, Pathum Thani, Thailand, Bangkok, Thailand
| | - Narumon Phaonakrop
- Functional Proteomics Technology Laboratory, National Center for Genetic Engineering and Biotechnology (BIOTEC), National Science and Technology Development Agency, Pathum Thani, Thailand, Bangkok, Thailand
| | - Sawanya Charoenlappanit
- Functional Proteomics Technology Laboratory, National Center for Genetic Engineering and Biotechnology (BIOTEC), National Science and Technology Development Agency, Pathum Thani, Thailand, Bangkok, Thailand
| | - Siriwan Thaisakun
- Functional Proteomics Technology Laboratory, National Center for Genetic Engineering and Biotechnology (BIOTEC), National Science and Technology Development Agency, Pathum Thani, Thailand, Bangkok, Thailand
| | - Sirilak Surachetpong
- Department of Veterinary Medicine, Faculty of Veterinary Science, Chulalongkorn University, Bangkok, Thailand, Bangkok, Thailand
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Zheng X, Liu Q, Liang Y, Feng W, Yu H, Tong C, Song B. Advancement in the development of single chain antibodies using phage display technology. PeerJ 2024; 12:e17143. [PMID: 38618563 PMCID: PMC11015834 DOI: 10.7717/peerj.17143] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/11/2023] [Accepted: 02/29/2024] [Indexed: 04/16/2024] Open
Abstract
Phage display technology has become an important research tool in biological research, fundamentally changing the traditional monoclonal antibody preparation process, and has been widely used in the establishment of antigen-antibody libraries, drug design, vaccine research, pathogen detection, gene therapy, antigenic epitope research, and cellular signal transduction research.The phage display is a powerful platform for technology development. Using phage display technology, single chain fragment variable (scFv) can be screened, replacing the disadvantage of the large size of traditional antibodies. Phage display single chain antibody libraries have significant biological implications. Here we describe the types of antibodies, including chimeric antibodies, bispecific antibodies, and scFvs. In addition, we describe the phage display system, phage display single chain antibody libraries, screening of specific antibodies by phage libraries and the application of phage libraries.
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Affiliation(s)
- Xiaohui Zheng
- College of Life Science and Technology, Heilongjiang Bayi Agricultural University, Daqing, Heilongjiang, China
| | - Qi Liu
- College of Life Science and Technology, Heilongjiang Bayi Agricultural University, Daqing, Heilongjiang, China
| | - Yimin Liang
- College of Life Science and Technology, Heilongjiang Bayi Agricultural University, Daqing, Heilongjiang, China
| | - Wenzhi Feng
- College of Life Science and Technology, Heilongjiang Bayi Agricultural University, Daqing, Heilongjiang, China
| | - Honghao Yu
- College of Life Science and Technology, Heilongjiang Bayi Agricultural University, Daqing, Heilongjiang, China
| | - Chunyu Tong
- College of Life Science and Technology, Heilongjiang Bayi Agricultural University, Daqing, Heilongjiang, China
| | - Bocui Song
- College of Life Science and Technology, Heilongjiang Bayi Agricultural University, Daqing, Heilongjiang, China
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Balasubramanian VK, Veličković D, Rubio Wilhelmi MDM, Anderton CR, Stewart CN, DiFazio S, Blumwald E, Ahkami AH. Spatiotemporal metabolic responses to water deficit stress in distinct leaf cell-types of poplar. FRONTIERS IN PLANT SCIENCE 2024; 15:1346853. [PMID: 38495374 PMCID: PMC10940329 DOI: 10.3389/fpls.2024.1346853] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/30/2023] [Accepted: 02/12/2024] [Indexed: 03/19/2024]
Abstract
The impact of water-deficit (WD) stress on plant metabolism has been predominantly studied at the whole tissue level. However, plant tissues are made of several distinct cell types with unique and differentiated functions, which limits whole tissue 'omics'-based studies to determine only an averaged molecular signature arising from multiple cell types. Advancements in spatial omics technologies provide an opportunity to understand the molecular mechanisms underlying plant responses to WD stress at distinct cell-type levels. Here, we studied the spatiotemporal metabolic responses of two poplar (Populus tremula× P. alba) leaf cell types -palisade and vascular cells- to WD stress using matrix-assisted laser desorption/ionization-mass spectrometry imaging (MALDI-MSI). We identified unique WD stress-mediated metabolic shifts in each leaf cell type when exposed to early and prolonged WD stresses and recovery from stress. During water-limited conditions, flavonoids and phenolic metabolites were exclusively accumulated in leaf palisade cells. However, vascular cells mainly accumulated sugars and fatty acids during stress and recovery conditions, respectively, highlighting the functional divergence of leaf cell types in response to WD stress. By comparing our MALDI-MSI metabolic data with whole leaf tissue gas chromatography-mass spectrometry (GC-MS)-based metabolic profile, we identified only a few metabolites including monosaccharides, hexose phosphates, and palmitic acid that showed a similar accumulation trend at both cell-type and whole leaf tissue levels. Overall, this work highlights the potential of the MSI approach to complement the whole tissue-based metabolomics techniques and provides a novel spatiotemporal understanding of plant metabolic responses to WD stress. This will help engineer specific metabolic pathways at a cellular level in strategic perennial trees like poplars to help withstand future aberrations in environmental conditions and to increase bioenergy sustainability.
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Affiliation(s)
- Vimal Kumar Balasubramanian
- Environmental Molecular Sciences Laboratory (EMSL), Pacific Northwest National Laboratory (PNNL), Richland, WA, United States
| | - Dušan Veličković
- Environmental Molecular Sciences Laboratory (EMSL), Pacific Northwest National Laboratory (PNNL), Richland, WA, United States
| | | | - Christopher R. Anderton
- Environmental Molecular Sciences Laboratory (EMSL), Pacific Northwest National Laboratory (PNNL), Richland, WA, United States
| | - C. Neal Stewart
- Department of Plant Sciences, University of Tennessee, Knoxville, TN, United States
- Center for Agricultural Synthetic Biology, University of Tennessee, Knoxville, TN, United States
| | - Stephen DiFazio
- Department of Biology, West Virginia University, Morgantown, WV, United States
| | - Eduardo Blumwald
- Department of Plant Sciences, University of California Davis, Davis, CA, United States
| | - Amir H. Ahkami
- Environmental Molecular Sciences Laboratory (EMSL), Pacific Northwest National Laboratory (PNNL), Richland, WA, United States
- Adjoint Faculty, School of Biological Science (SBS), Washington State University (WSU), Pullman, WA, United States
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A. PORTES JULIANA, C. VOMMARO ROSSIANE, AYRES CALDAS LUCIO, S. MARTINS-DUARTE ERICA. Intracellular life of protozoan Toxoplasma gondii: Parasitophorous vacuole establishment and survival strategies. BIOCELL 2023. [DOI: 10.32604/biocell.2023.026629] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/11/2023]
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Choi M, Bonanno JA. Mitochondrial Targeting of the Ammonia-Sensitive Uncoupler SLC4A11 by the Chaperone-Mediated Carrier Pathway in Corneal Endothelium. Invest Ophthalmol Vis Sci 2021; 62:4. [PMID: 34499705 PMCID: PMC8434753 DOI: 10.1167/iovs.62.12.4] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022] Open
Abstract
Purpose SLC4A11, an electrogenic H+ transporter, is found in the plasma membrane and mitochondria of corneal endothelium. However, the underlying mechanism of SLC4A11 targeting to mitochondria is unknown. Methods The presence of mitochondrial targeting sequences was examined using in silico mitochondrial proteomic analyses. Thiol crosslinked peptide binding to SLC4A11 was screened by untargeted liquid chromatography/tandem mass spectrometry (LC-MS/MS) analysis. Direct protein interactions between SLC4A11 and chaperones were examined using coimmunoprecipitation analysis and proximity ligation assay. Knockdown or pharmacologic inhibition of chaperones in human corneal endothelial cells (HCECs) or mouse corneal endothelial cells (MCECs), ex vivo kidney, or HA-SLC4A11–transfected fibroblasts was performed to investigate the functional consequences of interfering with mitochondrial SLC4A11 trafficking. Results SLC4A11 does not contain canonical N-terminal mitochondrial targeting sequences. LC-MS/MS analysis showed that HSC70 and/or HSP90 are bound to HA-SLC4A11–transfected PS120 fibroblast whole-cell lysates or isolated mitochondria, suggesting trafficking through the chaperone-mediated carrier pathway. SLC4A11 and either HSP90 or HSC70 complexes are directly bound to the mitochondrial surface receptor, TOM70. Interference with this trafficking leads to dysfunctional mitochondrial glutamine catabolism and increased reactive oxygen species production. In addition, glutamine (Gln) use upregulated SLC4A11, HSP70, and HSP90 expression in whole-cell lysates or purified mitochondria of HCECs and HA-SLC4A11–transfected fibroblasts. Conclusions HSP90 and HSC70 are critical in mediating mitochondrial SLC4A11 translocation in corneal endothelial cells and kidney. Gln promotes SLC4A11 import to the mitochondria, and the continuous oxidative stress derived from Gln catabolism induced HSP70 and HSP90, protecting cells against oxidative stress.
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Affiliation(s)
- Moonjung Choi
- Vision Science Program, Indiana University, School of Optometry, Bloomington, Indiana, United States
| | - Joseph A Bonanno
- Vision Science Program, Indiana University, School of Optometry, Bloomington, Indiana, United States
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Yu X, Sun N, Yang X, Zhao Z, Su X, Zhang J, He Y, Lin Y, Ge J, Fan Z. Nanophthalmos-Associated MYRF Gene Mutation Causes Ciliary Zonule Defects in Mice. Invest Ophthalmol Vis Sci 2021; 62:1. [PMID: 33646289 PMCID: PMC7937999 DOI: 10.1167/iovs.62.3.1] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022] Open
Abstract
Purpose Patients with nanophthalmos who undergo intraocular surgery often present with abnormal ciliary zonules. In a previous study, we reported mutation in MYRF that is implicated in the pathogenesis of nanophthalmos. The aim of this study was to model the mutation in mice to explore the role of MYRF on zonule structure and its major molecular composition, including FBN1 and FBN2. Methods Human MYRF nanophthalmos frameshift mutation was generated in mouse using the CRISPR-Cas9 system. PCR and Sanger sequencing were used for genotype analysis of the mice model. Anterior chamber depth (ACD) was measured using hematoxylin and eosin–stained histology samples. Morphologic analysis of ciliary zonules was carried out using silver staining and immunofluorescence. Transcript and protein expression levels of MYRF, FBN1, and FBN2 in ciliary bodies were quantified using quantitative real-time PCR (qRT-PCR) and Western blot. Results A nanophthalmos frameshift mutation (c.789delC, p.N264fs) of MYRF in mice showed ocular phenotypes similar to those reported in patients with nanophthalmos. ACD was reduced in MYRF mutant mice (MYRFmut/+) compared with that in littermate control mice (MYRF+/+). In addition, the morphology of ciliary zonules showed reduced zonular fiber density and detectable structural dehiscence of zonular fibers. Furthermore, qRT-PCR analysis and Western blot showed a significant decrease in mRNA expression levels of MYRF, FBN1, and FBN2 in MYRFmut/+ mice. Conclusions Changes in the structure and major molecular composition of ciliary zonules accompanied with shallowing anterior chamber were detected in MYRFmut/+ mice. Therefore, MYRF mutant mice strain is a useful model for exploring pathogenesis of zonulopathy, which is almost elusive for basic researches due to lack of appropriate animal models.
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Affiliation(s)
- Xiaowei Yu
- State Key Laboratory of Ophthalmology, Department of Glaucoma, Zhongshan Ophthalmic Center, Sun Yat-sen University, Guangzhou, Guangdong, China
| | - Nannan Sun
- State Key Laboratory of Ophthalmology, Department of Glaucoma, Zhongshan Ophthalmic Center, Sun Yat-sen University, Guangzhou, Guangdong, China
| | - Xue Yang
- State Key Laboratory of Ophthalmology, Department of Glaucoma, Zhongshan Ophthalmic Center, Sun Yat-sen University, Guangzhou, Guangdong, China
| | - Zhenni Zhao
- State Key Laboratory of Ophthalmology, Department of Glaucoma, Zhongshan Ophthalmic Center, Sun Yat-sen University, Guangzhou, Guangdong, China
| | - Xiaoqian Su
- State Key Laboratory of Ophthalmology, Department of Glaucoma, Zhongshan Ophthalmic Center, Sun Yat-sen University, Guangzhou, Guangdong, China
| | - Jiamin Zhang
- State Key Laboratory of Ophthalmology, Department of Glaucoma, Zhongshan Ophthalmic Center, Sun Yat-sen University, Guangzhou, Guangdong, China
| | - Yuqing He
- State Key Laboratory of Ophthalmology, Department of Glaucoma, Zhongshan Ophthalmic Center, Sun Yat-sen University, Guangzhou, Guangdong, China
| | - Yixiu Lin
- State Key Laboratory of Ophthalmology, Department of Glaucoma, Zhongshan Ophthalmic Center, Sun Yat-sen University, Guangzhou, Guangdong, China
| | - Jian Ge
- State Key Laboratory of Ophthalmology, Department of Glaucoma, Zhongshan Ophthalmic Center, Sun Yat-sen University, Guangzhou, Guangdong, China
| | - Zhigang Fan
- State Key Laboratory of Ophthalmology, Department of Glaucoma, Zhongshan Ophthalmic Center, Sun Yat-sen University, Guangzhou, Guangdong, China
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Nuwormegbe SA, Kim SW. AMPK Activation by 5-Amino-4-Imidazole Carboxamide Riboside-1-β-D-Ribofuranoside Attenuates Alkali Injury-Induced Corneal Fibrosis. Invest Ophthalmol Vis Sci 2021; 61:43. [PMID: 32561924 PMCID: PMC7415321 DOI: 10.1167/iovs.61.6.43] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022] Open
Abstract
Purpose Increased TGF-β1 synthesis after corneal alkali injury is implicated in corneal fibrosis, as it promotes transdifferentiation of keratocytes into myofibroblasts. The activation of 5'-adenosine monophosphate-activated protein kinase (AMPK) by 5-amino-4-imidazole carboxamide riboside-1-β-d-ribofuranoside (AICAR) inhibits TGF-β1-induced fibrosis in other cell types. We investigated the antifibrotic effect of AICAR in corneal fibroblasts after alkali injury. Methods Mouse models of corneal alkali burn, produced by placing 2-mm-diameter filter paper soaked in 0.1-N NaOH on the right cornea for 30 seconds, were treated with the test drugs 4× daily for 21 days. The central cornea was scanned by optical coherence tomography (OCT). Corneal tissues were obtained and processed for western blotting and immunohistochemistry. For in vitro analysis, primary human corneal fibroblasts were treated directly with TGF-β1 to induce fibrosis, with or without AICAR pretreatment. Myofibroblast activation and extracellular matrix (ECM) protein synthesis were detected by western blotting, real-time PCR, and collagen gel contraction assay. Signaling proteins were analyzed by western blotting. Results Alkali injury induced the upregulation of TGF-β1 expression, which led to increased α-smooth muscle actin (α-SMA) and fibronectin synthesis and myofibroblast differentiation. AMPK activation by AICAR significantly suppressed TGF-β1 and ECM protein expression. The antifibrotic effect of AICAR was AMPK dependent, as treatment with the AMPK inhibitor Compound C attenuated the antifibrotic response. Conclusions AMPK activation by AICAR suppresses the myofibroblast differentiation and ECM synthesis that occur after alkali injury in corneal fibroblasts.
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An C, Zhang K, Zhu W, Bi Y, Wu T, Tao C, Wang Y, Yang S. Molecular cloning, sequence characteristics, and tissue expression analysis of glucagon receptor gene in Bama minipig. CANADIAN JOURNAL OF ANIMAL SCIENCE 2020. [DOI: 10.1139/cjas-2019-0124] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
Recent studies have shown that the glucagon receptor (GCGR) plays an important role in the development of type 2 diabetes mellitus. Both pigs and humans exhibit significantly similar behaviors in their glucose and lipid metabolism. In this study, the obtained Bama minipig GCGR coding sequence was 1437 bp encoding 479 amino acids (AA), which demonstrated higher sequence homology with humans than other species. It showed the highest expression profile in the liver, followed by the lung and kidney. In addition, the three-dimensional structure analysis showed that the porcine GCGR protein also had a classic sevenfold transmembrane region and a stalk region at the N-terminus for ligand binding. The stalk region of GCGR possessed five AA variations. The ligand binding pocket of GCGR has one AA variation in the key region, none of which affected the glucagon binding verified by the crystal structure mutagenesis in humans. There was no variation found in the region of membrane anchoring, hydrophobic bond, salt bridge, and hydrogen bond. However, the Gly40Ser mutation in mice resulted in major diseases, meaning that pigs are more suitable for the evaluation of GCGR-related drugs than mice.
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Affiliation(s)
- Cuiping An
- State Key Laboratory of Animal Nutrition, Key Laboratory of Animal Genetics Breeding and Reproduction (Poultry), Ministry of Agriculture, Institute of Animal Sciences, Chinese Academy of Agricultural Sciences, Beijing 100193, People’s Republic of China
| | - Kaiyi Zhang
- State Key Laboratory of Animal Nutrition, Key Laboratory of Animal Genetics Breeding and Reproduction (Poultry), Ministry of Agriculture, Institute of Animal Sciences, Chinese Academy of Agricultural Sciences, Beijing 100193, People’s Republic of China
| | - Wenjuan Zhu
- State Key Laboratory of Animal Nutrition, Key Laboratory of Animal Genetics Breeding and Reproduction (Poultry), Ministry of Agriculture, Institute of Animal Sciences, Chinese Academy of Agricultural Sciences, Beijing 100193, People’s Republic of China
| | - Yanzhen Bi
- Institute of Animal Science and Veterinary Medicine, Hubei Academy of Agricultural Sciences, Wuhan 430064, People’s Republic of China
| | - Tianwen Wu
- State Key Laboratory of Animal Nutrition, Key Laboratory of Animal Genetics Breeding and Reproduction (Poultry), Ministry of Agriculture, Institute of Animal Sciences, Chinese Academy of Agricultural Sciences, Beijing 100193, People’s Republic of China
| | - Cong Tao
- State Key Laboratory of Animal Nutrition, Key Laboratory of Animal Genetics Breeding and Reproduction (Poultry), Ministry of Agriculture, Institute of Animal Sciences, Chinese Academy of Agricultural Sciences, Beijing 100193, People’s Republic of China
| | - Yanfang Wang
- State Key Laboratory of Animal Nutrition, Key Laboratory of Animal Genetics Breeding and Reproduction (Poultry), Ministry of Agriculture, Institute of Animal Sciences, Chinese Academy of Agricultural Sciences, Beijing 100193, People’s Republic of China
| | - Shulin Yang
- State Key Laboratory of Animal Nutrition, Key Laboratory of Animal Genetics Breeding and Reproduction (Poultry), Ministry of Agriculture, Institute of Animal Sciences, Chinese Academy of Agricultural Sciences, Beijing 100193, People’s Republic of China
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Mohammed SI, Torres-Luquis O, Zhou W, Lanman NA, Espina V, Liotta L. Tumor-Draining Lymph Secretome En Route to the Regional Lymph Node in Breast Cancer Metastasis. BREAST CANCER (DOVE MEDICAL PRESS) 2020; 12:57-67. [PMID: 32273752 PMCID: PMC7104086 DOI: 10.2147/bctt.s236168] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/26/2019] [Accepted: 12/12/2019] [Indexed: 12/20/2022]
Abstract
BACKGROUND During metastasis, tumor cells metastasize from primary tumors to distant organs via the circulatory and the lymphatic systems. There is a plethora of information about metastasis through the circulatory system, however not much information is available about the tumor cells dissemination through the lymphatic system or the lymphatic microenvironment that aids in this process in breast cancer metastasis. PURPOSE The study designed to examine the tumor-derived secretome in lymph before reaching the draining lymph nodes. METHODS Using a microsurgical technique, we have collected the lymph in transit from the primary tumor en route to the regional lymph node in animals with metastatic and non-metastatic mammary carcinoma and healthy controls. The lymph samples were subjected to LC-MS/MS analysis, bioinformatics, and pathway analysis. RESULTS The metastatic tumor-draining lymph before its entry into the closest regional lymph node contain 26 proteins with >175-folds in abundance compared to lymph from non-metastatic tumor-bearing animals. Among these proteins were biliverdin reductase B, heat shock protein, coagulation factor XIII, lymphocytes cytosol protein 1, and aldose reductase. These proteins were not identified in the lymph from healthy animals. Pathways analysis revealed that cadherin-mediated endocytosis, acute phase response, junction signaling, gap junction, VEGF singling, and PI3K/AKT singling pathways are overrepresented in the lymph from metastatic tumor-bearing compared to the lymph from non-metastatic tumor-bearing animals. Among the significantly up-regulated proteins in the lymph from metastatic tumor-bearing animals were proteins that identified in exosomes include heat shock protein, enolase 1 alpha, S100, and biliverdin reductase B. One of the proteins significantly down-regulated in lymph from animals with metastasis is Kininogen, a known metastasis inhibitor protein. CONCLUSION Proteins and exosomal proteins in lymph draining a metastatic tumor are different from those in lymph draining non-metastatic tumors, and these proteins involved in pathways that regulate tumor cells migration and invasion.
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Affiliation(s)
- Sulma I Mohammed
- Department of Comparative Pathobiology, Purdue University, West Lafayette, IN47907, USA
- Purdue University Center for Cancer Research, Purdue University, West Lafayette, IN47907, USA
| | - Odalys Torres-Luquis
- Department of Comparative Pathobiology, Purdue University, West Lafayette, IN47907, USA
| | - Weidong Zhou
- Center for Applied Proteomics and Molecular Medicine, George Mason University, Manassas, VA20110, USA
| | - Nadia Attalah Lanman
- Department of Comparative Pathobiology, Purdue University, West Lafayette, IN47907, USA
- Purdue University Center for Cancer Research, Purdue University, West Lafayette, IN47907, USA
| | - Virginia Espina
- Center for Applied Proteomics and Molecular Medicine, George Mason University, Manassas, VA20110, USA
| | - Lance Liotta
- Center for Applied Proteomics and Molecular Medicine, George Mason University, Manassas, VA20110, USA
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Manguy J, Shields DC. Implications of kappa-casein evolutionary diversity for the self-assembly and aggregation of casein micelles. ROYAL SOCIETY OPEN SCIENCE 2019; 6:190939. [PMID: 31824707 PMCID: PMC6837221 DOI: 10.1098/rsos.190939] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/23/2019] [Accepted: 09/24/2019] [Indexed: 06/10/2023]
Abstract
Milk alpha-, beta- and kappa-casein proteins assemble into casein micelles in breast epithelial cells. The glycomacropeptide (GMP) tails of kappa-casein that extend from the surface of the micelle are key to assembly and aggregation. Aggregation is triggered by stomach pepsin cleavage of GMP from para-kappa-casein (PKC). While one casein micelle model emphasizes the importance of hydrophobic interactions, another focuses on polar residues. We performed an evolutionary analysis of kappa-casein primary sequence and predicted features that potentially impact on protein interactions. We noted more rapid change in the earlier period (166 to 60 Ma). Pepsin and plasmin cleavage sites were avoided in the GMP, which may partly explain its amino acid composition. Short tandem repeats have led to modest expansions of PKC, and to large GMP expansions, suggesting the GMP is less length constrained. Amino acid compositional constraints were assessed across species. Polarity and hydrophobicity properties were insufficient to explain differences between PKC and GMP. Among polar residues, threonine dominates the GMP, compared to serine, probably reflecting its preference for O-glycosylation over phosphorylation. Glutamine, enriched in the bovine PQ-rich region, is not positionally conserved in other species. Among hydrophobic residues, isoleucine is clearly preferred over leucine in the GMP, and patches of hydrophobicity are not markedly positionally conserved. PKC tyrosine and charged residues showed stronger conservation of position, suggesting a role for pi-interactions, seen in other structurally dynamic protein membraneless assemblies. Independent acquisitions of cysteines are consistent with a trend of increasing stabilization of multimers by covalent disulphide bonds, over evolutionary time. In conclusion, kappa-casein compositional and positional constraints appear to be influenced by modification preferences, protease evasion and protein-protein interactions.
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Affiliation(s)
- Jean Manguy
- UCD Conway Institute, University College Dublin, Belfield, Dublin 4, Ireland
- School of Medicine, University College Dublin, Belfield, Dublin 4, Ireland
- Food for Health Ireland, University College Dublin, Belfield, Dublin 4, Ireland
| | - Denis C. Shields
- UCD Conway Institute, University College Dublin, Belfield, Dublin 4, Ireland
- School of Medicine, University College Dublin, Belfield, Dublin 4, Ireland
- Food for Health Ireland, University College Dublin, Belfield, Dublin 4, Ireland
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Vita F, Giuntoli B, Arena S, Quaranta F, Bertolini E, Lucarotti V, Guglielminetti L, Alessio M, Scaloni A, Alpi A. Effects of different nitrogen fertilizers on two wheat cultivars: An integrated approach. PLANT DIRECT 2018; 2:e00089. [PMID: 31245689 PMCID: PMC6508776 DOI: 10.1002/pld3.89] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/13/2018] [Revised: 09/06/2018] [Accepted: 10/01/2018] [Indexed: 06/09/2023]
Abstract
Investigation of cultivated plant physiology grown under low energy input plays an important role to indicate their fitness to the new environmental conditions. The durum-wheat cultivars Creso and Dylan were tested to evaluate the growth, production, and proteomic and transcriptomic profiles of the crop under different synthetic and organic nitrogen fertilization regimes. In this work, a two-dimensional gel electrophoresis (2-DE) approach combined with liquid chromatography-mass spectrometry (LC-MS) was used to investigate the protein changes induced by the use of different nitrogen sources (hydrolysate of proteins 1 and 2, rhizovit, synthesis, leather) on wheat plants. Proteomic studies were integrated with qPCR analysis of genes related to glutamine synthetase/glutamine-2-oxoglutarate aminotransferase (GS-GOGAT) and tricarboxylic acid (TCA) metabolic pathways because most relevant for nitrogen-dependent plants growth. The proteomic analysis lead to the isolation of 23 spots that were able to distinguish the analyzed samples. These spots yielded the identification of 60 proteins involved in photosynthesis, glycolysis, and nitrogen metabolism. As an example, the quinone oxidoreductase-like protein and probable glutathione S-transferase GSTU proteins were identified in two spots that represents the most statistically significant ones in Dylan samples. Transcript analysis indicated that related genes exhibited different expression trends; the heat map also revealed the different behaviors of the hydrolysates of the proteins 1 and 2 nitrogen sources. The effects of nitrogenous fertilizers at the proteomic and agronomic levels revealed that plants fertilized with synthesis or rhizovit gave the best results concerning yield, whereas rhizovit and protein hydrolysates were most effective for proteins content in the grain (% of dry weight). Therefore, all parameters measured in this study indicated that different kinds of nitrogen fertilization used have a relevant impact on plant growth and production.
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Affiliation(s)
- Federico Vita
- LINV-Department of Plant Soil and Environmental Science University of Florence Florence Italy
- A.R.E.A. Foundation Pisa Italy
| | - Beatrice Giuntoli
- Biology Department University of Pisa Pisa Italy
- Institute of Life Sciences Scuola Superiore Sant'Anna Pisa Italy
| | - Simona Arena
- Proteomics and Mass Spectrometry Laboratory I.S.P.A.A.M. National Research Council Napoli Italy
| | - Fabrizio Quaranta
- Council for Agricultural Research and Agricultural Economics Analysis Unità di ricerca per la valorizzazione qualitativa dei cereali (CREA-QCE) Rome Italy
| | - Edoardo Bertolini
- Institute of Life Sciences Scuola Superiore Sant'Anna Pisa Italy
- Present address: Donald Danforth Plant Science Center Saint Louis Missouri
| | - Valentina Lucarotti
- Department of Agriculture, Food and Environment (DiSAAA) University of Pisa Pisa Italy
| | | | - Massimo Alessio
- Proteome Biochemistry Unit IRCCS-San Raffaele Scientific Institute Milan Italy
| | - Andrea Scaloni
- Proteomics and Mass Spectrometry Laboratory I.S.P.A.A.M. National Research Council Napoli Italy
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12
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Cohen M, Fluhr R. Noncanonical interactions between serpin and β-amylase in barley grain improve β-amylase activity in vitro. PLANT DIRECT 2018; 2:e00054. [PMID: 31245723 PMCID: PMC6508567 DOI: 10.1002/pld3.54] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/12/2018] [Revised: 03/23/2018] [Accepted: 03/26/2018] [Indexed: 05/31/2023]
Abstract
Serpin protease inhibitors and β-amylase starch hydrolases are very abundant seed proteins in the endosperm of grasses. β-amylase is a crucial enzyme in the beer industry providing maltose for fermenting yeast. In animals and plants, inhibitory serpins form covalent linkages that inactivate their cognate proteases. Additionally, in animals, noninhibitory functions for serpins are observed such as metabolite carriers and chaperones. The function of serpins in seeds has yet to be unveiled. In developing endosperm, serpin Z4 and β-amylase showed similar in vivo spatio-temporal accumulation properties and colocalize in the cytosol of transformed tobacco leaves. A molecular interaction between recombinant proteins of serpin Z4 and β-amylase was revealed by surface plasmon resonance and microscale thermophoresis yielding a dissociation constant of 10-7 M. Importantly, the addition of serpin Z4 significantly changes β-amylase enzymatic properties by increasing its maximal catalytic velocity. The presence of serpin Z4 stabilizes β-amylase activity during heat treatment without affecting its critical denaturing temperature. Oxidative stress, simulated by the addition of CuCl2, leads to the formation of high molecular weight polymers of β-amylase similar to those detected in vivo. The polymers were cross-linked through disulfide bonds, the formation of which was repressed when serpin Z4 was present. The results suggest an unprecedented function for a plant seed serpin as a β-amylase-specific chaperone-like partner that could optimize β-amylase activity upon germination. This report is the first to describe a noninhibitory function for a serpin in plants.
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Affiliation(s)
- Maja Cohen
- Department of Plant SciencesWeizmann Institute of ScienceRehovotIsrael
| | - Robert Fluhr
- Department of Plant SciencesWeizmann Institute of ScienceRehovotIsrael
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13
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林 莉, 江 庆, 林 丹, 陈 炜, 蒋 惠, 刘 春, 肖 艳, 朱 丽, 郭 遂. [Expression of phosphoglycerate kinase 1 in endometrial carcinoma and its association with patients' outcome]. NAN FANG YI KE DA XUE XUE BAO = JOURNAL OF SOUTHERN MEDICAL UNIVERSITY 2018; 38:471-476. [PMID: 29735450 PMCID: PMC6765659 DOI: 10.3969/j.issn.1673-4254.2018.04.17] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Subscribe] [Scholar Register] [Received: 09/09/2017] [Indexed: 06/08/2023]
Abstract
OBJECTIVE To investigate the expression of phosphoglycerate kinase 1 (PGK1) and its prognostic value in endometrial carcinoma (EC). METHODS The expression of PGK1 was detected immunohistochemically in 30 normal endometrium and 130 EC specimens. The relationship between PGK1 protein expression and the clinicopathological features of the patients was evaluated. RESULTS Immunohistochemical analysis revealed low PGK1 expression in 55.4% (72/130) and high PGK1 expression in 44.6% (58/130) of the EC specimens, as compared with the rates of 90% (27/30) and 10% (3/30) in normal endometrium, respectively (P<0.001). PGK1 expression was significantly correlated with FIGO stage (P<0.001), histological grade (P=0.002) and lymph node metastasis (P<0.001). Kaplan-Meier survival analysis indicated that patients with a high PGK1 expression had a shorter overall survival rate than those with a low PGK1 expression (P<0.001). Multivariate analysis showed that a high PGK1 expression was not the independent predictor of the prognosis of EC (P=0.077). CONCLUSION A high expression of PGK1 is associated with aggressive and metastatic behaviors of EC, and detection of PGK1 provides assistance in evaluating the prognosis of patients with EC.
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Affiliation(s)
- 莉 林
- 南方医科大学第三附属医院妇产科,广东 广州 510630Department of Obstetrics and Gynecology, Third Affiliated Hospital, Southern Medical University, Guangzhou 510630, China
| | - 庆萍 江
- 广州医科大学第三附属医院病理科,广东 广州 510150Department of Pathology, Third Affiliated Hospital of Guangzhou Medical University, Guangzhou 510150, China
| | - 丹 林
- 南方医科大学第三附属医院妇产科,广东 广州 510630Department of Obstetrics and Gynecology, Third Affiliated Hospital, Southern Medical University, Guangzhou 510630, China
| | - 炜 陈
- 南方医科大学第三附属医院妇产科,广东 广州 510630Department of Obstetrics and Gynecology, Third Affiliated Hospital, Southern Medical University, Guangzhou 510630, China
| | - 惠萍 蒋
- 南方医科大学第三附属医院妇产科,广东 广州 510630Department of Obstetrics and Gynecology, Third Affiliated Hospital, Southern Medical University, Guangzhou 510630, China
| | - 春花 刘
- 南方医科大学第三附属医院妇产科,广东 广州 510630Department of Obstetrics and Gynecology, Third Affiliated Hospital, Southern Medical University, Guangzhou 510630, China
| | - 艳怡 肖
- 南方医科大学第三附属医院妇产科,广东 广州 510630Department of Obstetrics and Gynecology, Third Affiliated Hospital, Southern Medical University, Guangzhou 510630, China
| | - 丽彤 朱
- 南方医科大学第三附属医院妇产科,广东 广州 510630Department of Obstetrics and Gynecology, Third Affiliated Hospital, Southern Medical University, Guangzhou 510630, China
| | - 遂群 郭
- 南方医科大学第三附属医院妇产科,广东 广州 510630Department of Obstetrics and Gynecology, Third Affiliated Hospital, Southern Medical University, Guangzhou 510630, China
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14
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Favre L, Ortalo-Magné A, Pichereaux C, Gargaros A, Burlet-Schiltz O, Cotelle V, Culioli G. Metabolome and proteome changes between biofilm and planktonic phenotypes of the marine bacterium Pseudoalteromonas lipolytica TC8. BIOFOULING 2018; 34:132-148. [PMID: 29319346 DOI: 10.1080/08927014.2017.1413551] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/30/2017] [Accepted: 11/29/2017] [Indexed: 06/07/2023]
Abstract
A number of bacteria adopt various lifestyles such as planktonic free-living or sessile biofilm stages. This enables their survival and development in a wide range of contrasting environments. With the aim of highlighting specific metabolic shifts between these phenotypes and to improve the overall understanding of marine bacterial adhesion, a dual metabolomics/proteomics approach was applied to planktonic and biofilm cultures of the marine bacterium Pseudoalteromonas lipolytica TC8. The liquid chromatography mass spectrometry (LC-MS) based metabolomics study indicated that membrane lipid composition was highly affected by the culture mode: phosphatidylethanolamine (PEs) derivatives were over-produced in sessile cultures while ornithine lipids (OLs) were more specifically synthesized in planktonic samples. In parallel, differences between proteomes revealed that peptidases, oxidases, transcription factors, membrane proteins and the enzymes involved in histidine biosynthesis were over-expressed in biofilms while proteins involved in heme production, nutrient assimilation, cell division and arginine/ornithine biosynthesis were specifically up-regulated in free-living cells.
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Affiliation(s)
- Laurie Favre
- a MAPIEM EA 4323 , Université de Toulon , Toulon , France
| | | | - Carole Pichereaux
- b Fédération de Recherche FR3450 , CNRS , Toulouse , France
- c Institut de Pharmacologie et de Biologie Structurale, IPBS , Université de Toulouse, CNRS, UPS , Toulouse , France
| | - Audrey Gargaros
- c Institut de Pharmacologie et de Biologie Structurale, IPBS , Université de Toulouse, CNRS, UPS , Toulouse , France
| | - Odile Burlet-Schiltz
- c Institut de Pharmacologie et de Biologie Structurale, IPBS , Université de Toulouse, CNRS, UPS , Toulouse , France
| | - Valérie Cotelle
- d Laboratoire de Recherche en Sciences Végétales , Université de Toulouse, CNRS, UPS , Castanet-Tolosan , France
| | - Gérald Culioli
- a MAPIEM EA 4323 , Université de Toulon , Toulon , France
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15
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Olshen A, Wolf D, Jones EF, Newitt D, van ‘t Veer LJ, Yau C, Esserman L, Wulfkuhle JD, Gallagher RI, Singer L, Petricoin EF, Hylton N, Park CC. Features of MRI stromal enhancement with neoadjuvant chemotherapy: a subgroup analysis of the ACRIN 6657/I-SPY TRIAL. J Med Imaging (Bellingham) 2017; 5:011014. [PMID: 29296631 PMCID: PMC5741993 DOI: 10.1117/1.jmi.5.1.011014] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/27/2017] [Accepted: 11/06/2017] [Indexed: 12/29/2022] Open
Abstract
Although the role of cancer-activated stroma in malignant progression has been well investigated, the influence of an activated stroma in therapy response is not well understood. Using retrospective pilot cohorts, we previously observed that MRI detected stromal contrast enhancement was associated with proximity to the tumor and was predictive for relapse-free survival in patients with breast cancer receiving neoadjuvant chemotherapy. Here, to evaluate the association of stromal contrast enhancement to therapy, we applied an advanced tissue mapping technique to evaluate stromal enhancement patterns within 71 patients enrolled in the I-SPY 1 neoadjuvant breast cancer trial. We correlated MR stromal measurements with stromal protein levels involved in tumor progression processes. We found that stromal percent enhancement values decrease with distance from the tumor edge with the estimated mean change ranging [Formula: see text] to [Formula: see text] ([Formula: see text]) for time points T2 through T4. While not statistically significant, we found a decreasing trend in global stromal signal enhancement ratio values with the use of chemotherapy. There were no statistically significant differences between MR enhancement measurements and stromal protein levels. Findings from this study indicate that stromal features characterized by MRI are impacted by chemotherapy and may have predictive value in a larger study.
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Affiliation(s)
- Adam Olshen
- University of California San Francisco, Department of Biostatistics and Epidemiology, San Francisco, California, United States.,University of California San Francisco, UCSF Helen Diller Family Comprehensive Cancer Center, San Francisco, California, United States
| | - Denise Wolf
- University of California San Francisco, Department of Laboratory Medicine, San Francisco, California, United States
| | - Ella F Jones
- University of California San Francisco, Department of Radiology and Biomedical Imaging, San Francisco, California, United States
| | - David Newitt
- University of California San Francisco, Department of Surgery, San Francisco, California, United States
| | - Laura J van ‘t Veer
- University of California San Francisco, Department of Laboratory Medicine, San Francisco, California, United States
| | - Christina Yau
- University of California San Francisco, Department of Surgery, San Francisco, California, United States
| | - Laura Esserman
- University of California San Francisco, Department of Surgery, San Francisco, California, United States
| | - Julia D Wulfkuhle
- George Mason University, Center for Applied Proteomics and Molecular Medicine, Manassas, Virginia, United States
| | - Rosa I Gallagher
- George Mason University, Center for Applied Proteomics and Molecular Medicine, Manassas, Virginia, United States
| | - Lisa Singer
- University of California San Francisco, Department of Radiation Oncology, San Francisco, California, United States
| | - Emanuel F Petricoin
- George Mason University, Center for Applied Proteomics and Molecular Medicine, Manassas, Virginia, United States
| | - Nola Hylton
- University of California San Francisco, Department of Radiology and Biomedical Imaging, San Francisco, California, United States
| | - Catherine C Park
- University of California San Francisco, UCSF Helen Diller Family Comprehensive Cancer Center, San Francisco, California, United States.,University of California San Francisco, Department of Radiation Oncology, San Francisco, California, United States
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16
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陈 壮, 肖 耀, 黄 泽, 陈 彤, 赵 善, 姜 耀, 吴 芃, 郑 少. [Quantitative and comparative proteomics analysis in clear cell renal cell carcinoma and adjacent noncancerous tissues by 2-D DIGE]. NAN FANG YI KE DA XUE XUE BAO = JOURNAL OF SOUTHERN MEDICAL UNIVERSITY 2017; 37:1517-1522. [PMID: 29180334 PMCID: PMC6779643 DOI: 10.3969/j.issn.1673-4254.2017.11.15] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Subscribe] [Scholar Register] [Received: 04/06/2017] [Indexed: 06/07/2023]
Abstract
OBJECTIVE To identify specific protein markers for renal cell carcinoma detection and diagnosis, as well as develop new potential therapeutic targets of the disease. METHODS We used two-dimensional difference in-gel electrophoresis (2-D DIGE) technique conjunction with mass spectrometry (MS) for the identification of significant differentially expressed proteins between 15cases of paired clear cell renal cell carcinoma (ccRCC) and adjacent normal renal tissues. The protein spots were considered as differentially expressed if a 1.5-fold altered expression level was observed (Student's t test, P value<0.05). RESULTS Of the 27 differentially expressed protein spots, 26 proteins were successfully identified. 11 proteins up-regulated in renal cell carcinoma,15 proteins down-regulated. Among them Short/branched chain specific acyl-CoA dehydrogenase, mitochondrial (ACDSB), Aldose 1-epimerase (GALM), Peroxiredoxin-4 (PRDX4), Macrophage-capping protein (CAPG), Beta-defensin 107 (D107A), Microfibril-associated glycoprotein 4 (MFAP4) were first time screening as new differential expressed proteins by protomic study in renal cell carcinoma. CONCLUSIONS 2-D DIGE is a useful technique for screening and analysis differential expressed proteins in renal cell carcinoma. These new differently expressed proteins may be useful for development new molecular markers for the tumor.
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Affiliation(s)
- 壮飞 陈
- 南方医科大学南方医院泌尿外科,广东 广州 510515Department of Urology, Nanfang Hospital, Southern Medical University, Guangzhou 510515, China
| | - 耀军 肖
- 广州医学院附属武警医院泌尿外科,广东 广州 510000Department of Urology, Armed Police Hospital of Guangdong Province, Guangzhou 510507, China
| | - 泽海 黄
- 南方医科大学南方医院泌尿外科,广东 广州 510515Department of Urology, Nanfang Hospital, Southern Medical University, Guangzhou 510515, China
| | - 彤 陈
- 南方医科大学南方医院泌尿外科,广东 广州 510515Department of Urology, Nanfang Hospital, Southern Medical University, Guangzhou 510515, China
| | - 善超 赵
- 南方医科大学南方医院泌尿外科,广东 广州 510515Department of Urology, Nanfang Hospital, Southern Medical University, Guangzhou 510515, China
| | - 耀东 姜
- 南方医科大学南方医院泌尿外科,广东 广州 510515Department of Urology, Nanfang Hospital, Southern Medical University, Guangzhou 510515, China
| | - 芃 吴
- 南方医科大学南方医院泌尿外科,广东 广州 510515Department of Urology, Nanfang Hospital, Southern Medical University, Guangzhou 510515, China
| | - 少斌 郑
- 南方医科大学南方医院泌尿外科,广东 广州 510515Department of Urology, Nanfang Hospital, Southern Medical University, Guangzhou 510515, China
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17
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Iskender H, Yenice G, Dokumacioglu E, Kaynar O, Hayirli A, Kaya A. Comparison of the effects of dietary supplementation of flavonoids on laying hen performance, egg quality and egg nutrient profile. Br Poult Sci 2017; 58:550-556. [DOI: 10.1080/00071668.2017.1349297] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
Affiliation(s)
- H. Iskender
- Department of Nutrition and Dietetics, Faculty of Health Sciences, Artvin Coruh University, Artvin, Turkey
| | - G. Yenice
- Department of Animal Nutrition and Nutritional Disorders, Faculty of Veterinary Medicine, Ataturk University, Erzurum, Turkey
| | - E. Dokumacioglu
- Department of Nutrition and Dietetics, Faculty of Health Sciences, Artvin Coruh University, Artvin, Turkey
| | - O. Kaynar
- Department of Biochemistry, Faculty of Veterinary Medicine, Ataturk University, Erzurum, Turkey
| | - A. Hayirli
- Department of Animal Nutrition and Nutritional Disorders, Faculty of Veterinary Medicine, Ataturk University, Erzurum, Turkey
| | - A. Kaya
- Department of Animal Sciences, Agricultural Faculty, Ataturk University, Erzurum, Turkey
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18
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Sukhbold E, Sekimoto S, Watanabe E, Yamazaki A, Yang L, Takasugi M, Yamada K, Hosomi R, Fukunaga K, Arai H. Effects of oolonghomobisflavan A on oxidation of low-density lipoprotein. Biosci Biotechnol Biochem 2017; 81:1569-1575. [DOI: 10.1080/09168451.2017.1314758] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023]
Affiliation(s)
- Enkhtsetseg Sukhbold
- Department of Biotechnology and Environmental Chemistry, Kitami Institute of Technology, Kitami, Japan
| | - Shogo Sekimoto
- Department of Biotechnology and Environmental Chemistry, Kitami Institute of Technology, Kitami, Japan
| | - Emiko Watanabe
- Department of Biotechnology and Environmental Chemistry, Kitami Institute of Technology, Kitami, Japan
| | - Akane Yamazaki
- Department of Biotechnology and Environmental Chemistry, Kitami Institute of Technology, Kitami, Japan
| | - Lifeng Yang
- Department of Biotechnology and Environmental Chemistry, Kitami Institute of Technology, Kitami, Japan
| | - Mikako Takasugi
- Faculty of Engineering, Kyushu Sangyo University, Fukuoka, Japan
| | - Koji Yamada
- Faculty of Biotechnology and Life Science, Sojo University, Kumamoto, Japan
| | - Ryota Hosomi
- Faculty of Chemistry, Materials and Bioengineering, Kansai University, Suita, Japan
| | - Kenji Fukunaga
- Faculty of Chemistry, Materials and Bioengineering, Kansai University, Suita, Japan
| | - Hirofumi Arai
- Department of Biotechnology and Environmental Chemistry, Kitami Institute of Technology, Kitami, Japan
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19
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Kim MH, Wu WH, Choi JH, Kim JH, Hong SH, Jun JH, Ko Y, Lee JH. Conditioned medium from the three-dimensional culture of human umbilical cord perivascular cells accelerate the migration and proliferation of human keratinocyte and fibroblast. JOURNAL OF BIOMATERIALS SCIENCE-POLYMER EDITION 2017; 29:1066-1080. [DOI: 10.1080/09205063.2017.1340045] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
Affiliation(s)
- Min Ho Kim
- Eulji Medi-Bio Research Institute, Eulji University, Seoul, South Korea
- Division of Biotechnology, College of Life Sciences and Biotechnology, Korea University, Seoul, South Korea
| | - Wen Hao Wu
- Eulji Medi-Bio Research Institute, Eulji University, Seoul, South Korea
| | - Jee Hyun Choi
- Eulji Medi-Bio Research Institute, Eulji University, Seoul, South Korea
| | - Ji Hyun Kim
- Department of Senior Healthcare, BK21 plus Program, Graduated School, Eulji University, Seongnam, South Korea
| | - Seok-Ho Hong
- Department of Internal Medicine, School of Medicine, Stem Cell Institute, Kangwon National University, Chuncheon, South Korea
| | - Jin Hyun Jun
- Eulji Medi-Bio Research Institute, Eulji University, Seoul, South Korea
- Department of Senior Healthcare, BK21 plus Program, Graduated School, Eulji University, Seongnam, South Korea
- Department of Biomedical Laboratory Science, Eulji University, Seongnam, South Korea
| | - Yong Ko
- Division of Biotechnology, College of Life Sciences and Biotechnology, Korea University, Seoul, South Korea
| | - Jong Hun Lee
- Eulji Medi-Bio Research Institute, Eulji University, Seoul, South Korea
- Department of Plastic and Reconstructive Surgery, Eulji General Hospital, College of Medicine, Eulji University, Seoul, South Korea
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Abstract
Cereals contribute a major part of human nutrition and are considered as an integral source of energy for human diets. With genomic databases already available in cereals such as rice, wheat, barley, and maize, the focus has now moved to proteome analysis. Proteomics studies involve the development of appropriate databases based on developing suitable separation and purification protocols, identification of protein functions, and can confirm their functional networks based on already available data from other sources. Tremendous progress has been made in the past decade in generating huge data-sets for covering interactions among proteins, protein composition of various organs and organelles, quantitative and qualitative analysis of proteins, and to characterize their modulation during plant development, biotic, and abiotic stresses. Proteomics platforms have been used to identify and improve our understanding of various metabolic pathways. This article gives a brief review of efforts made by different research groups on comparative descriptive and functional analysis of proteomics applications achieved in the cereal science so far.
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Affiliation(s)
- Monika Bansal
- a School of Agriculture, Lovely Professional University , Phagwara 144411 , Punjab.,b School of Agriculture , Lovely Professional University , Phagwara 144411 , Punjab
| | - Madhu Sharma
- a School of Agriculture, Lovely Professional University , Phagwara 144411 , Punjab
| | - Priyanka Kanwar
- a School of Agriculture, Lovely Professional University , Phagwara 144411 , Punjab
| | - Aakash Goyal
- c Biodiversity and Integrated Gene Management Program , International Center for Agriculture Research in the Dry Areas (ICARDA) , P.O.Box 6299, Rabat-Institutes, Rabat , Morocco
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21
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Taniguchi M, Ochiai A. Characterization and production of multifunctional cationic peptides derived from rice proteins. Biosci Biotechnol Biochem 2017; 81:634-650. [DOI: 10.1080/09168451.2016.1277944] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
Abstract
Abstract
Food proteins have been identified as a source of bioactive peptides. These peptides are inactive within the sequence of the parent protein and must be released during gastrointestinal digestion, fermentation, or food processing. Of bioactive peptides, multifunctional cationic peptides are more useful than other peptides that have specific activity in promotion of health and/or the treatment of diseases. We have identified and characterized cationic peptides from rice enzymes and proteins that possess multiple functions, including antimicrobial, endotoxin-neutralizing, arginine gingipain-inhibitory, and/or angiogenic activities. In particular, we have elucidated the contribution of cationic amino acids (arginine and lysine) in the peptides to their bioactivities. Further, we have discussed the critical parameters, particularly proteinase preparations and fractionation or purification, in the enzymatic hydrolysis process for producing bioactive peptides from food proteins. Using an ampholyte-free isoelectric focusing (autofocusing) technique as a tool for fractionation, we successfully prepared fractions containing cationic peptides with multiple functions.
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Affiliation(s)
- Masayuki Taniguchi
- Department of Materials Science and Technology, Graduate School of Science and Technology, Niigata University, Niigata, Japan
- Center for Transdisciplinary Research, Niigata University, Niigata, Japan
| | - Akihito Ochiai
- Department of Materials Science and Technology, Graduate School of Science and Technology, Niigata University, Niigata, Japan
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22
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Chung H, Lee N, Seo JA, Kim YS. Comparative analysis of nonvolatile and volatile metabolites in Lichtheimia ramosa cultivated in different growth media. Biosci Biotechnol Biochem 2017; 81:565-572. [DOI: 10.1080/09168451.2016.1256756] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
Abstract
Abstract
Lichtheimia ramosa is one of the predominant filamentous fungi in Korean traditional nuruk. The nonvolatile and volatile metabolites of L. ramosa cultivated in three growth media: complete medium (CM), potato dextrose broth (PDB), and sabouraud dextrose broth (SDB), were investigated and compared. Among nonvolatile metabolites, serine, lysine, and ornithine increased in CM and PDB cultivated with L. ramosa during the exponential phase. In addition, glucose level increased in CM whereas decreased in PDB and SDB. The major volatile metabolites in the extract samples were acetic acid, ethanol, 3-methyl-2-buten-1-ol, 2-phenylethanol, ethylacetate, 2-furaldehyde, 5-(hydroxymethyl)-2-furaldehyde, 2,3-dihydro-3,5,-dihydroxy-6-methyl-4H-pyran-4-one, and α-humulene. In particular, the levels of volatile metabolites related to makgeolli (e.g., acetic acid, ethanol, and ethyl acetate) were highest in extracts cultivated in CM. On the other hand, the level of 2-phenylethanol was relatively higher in PDB and SDB, possibly due to there being more phenylalanine present in the biomass sample in media.
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Affiliation(s)
- Hyun Chung
- Department of Food Science and Engineering, Ewha Womans University, Seoul, Korea
| | - NaKyeom Lee
- Department of Food Science and Engineering, Ewha Womans University, Seoul, Korea
| | - Jeong-Ah Seo
- School of Systems Biomedical Science, Soongsil University, Seoul, Korea
| | - Young-Suk Kim
- Department of Food Science and Engineering, Ewha Womans University, Seoul, Korea
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23
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Shi J, Wang D, Zhou Y, Gu Y, Wu D, Wang J, Hong Y. Comparative proteomics analysis of spermary and ovary in Hyriopsis schlegelii. Biosci Biotechnol Biochem 2017; 81:491-499. [DOI: 10.1080/09168451.2016.1259553] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
Abstract
Abstract
We provide the first large-scale quantitative proteomics analysis in Hyriopsis schlegelii. To investigate the proteins expressed in the gonads, a quantitative proteomics approach has been utilized to analyze differentially expressed proteins between the spermary and ovary. In this study, we identified and quantified 2416 proteins in the gonads of Hyriopsis schlegelii. Of these, 559 proteins showed significantly different expression between the spermary and ovary. Some specific proteins expressed in either the spermary or ovary were identified in Hyriopsis schlegelii. In addition, a series of proteins related to gametogenesis were also identified. Compared with previous reports, many proteins in Hyriopsis schlegelii identified here have different expression patterns between the spermary and ovary. The special hermaphroditism in Hyriopsis schlegelii may contribute to these inconsistent results. The provided proteomics data could be considered as a starting point for subsequent studies focusing on the proteins involved in sexual gland development and maturity.
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Affiliation(s)
- Jianwu Shi
- School of Life Sciences, Nanchang University, Nanchang, China
| | - Dexia Wang
- School of Life Sciences, Nanchang University, Nanchang, China
| | - Yan Zhou
- School of Life Sciences, Nanchang University, Nanchang, China
| | - Yiran Gu
- School of Life Sciences, Nanchang University, Nanchang, China
| | - Di Wu
- School of Life Sciences, Nanchang University, Nanchang, China
| | - Junhua Wang
- School of Life Sciences, Nanchang University, Nanchang, China
| | - Yijiang Hong
- School of Life Sciences, Nanchang University, Nanchang, China
- Key Laboratory of Molecular Biology and Genetic Engineering of Jiangxi, Nanchang University, Nanchang, China
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Bulashev AK, Suranshiev ZA, Akibekov OS, Akanova ZZ, Abulgazimova GA. Serological diagnosis of cystic echinococcosis in cattle. Folia Parasitol (Praha) 2017; 64. [DOI: 10.14411/fp.2017.005] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/28/2016] [Accepted: 12/07/2016] [Indexed: 11/19/2022]
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Deal J, Favreau PF, Lopez C, Lall M, Weber DS, Rich TC, Leavesley SJ. Excitation-Scanning Hyperspectral Imaging as a Means to Discriminate Various Tissues Types. PROCEEDINGS OF SPIE--THE INTERNATIONAL SOCIETY FOR OPTICAL ENGINEERING 2017; 10068:1006816. [PMID: 34092886 PMCID: PMC8173709 DOI: 10.1117/12.2251682] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]
Abstract
Little is currently known about the fluorescence excitation spectra of disparate tissues and how these spectra change with pathological state. Current imaging diagnostic techniques have limited capacity to investigate fluorescence excitation spectral characteristics. This study utilized excitation-scanning hyperspectral imaging to perform a comprehensive assessment of fluorescence spectral signatures of various tissues. Immediately following tissue harvest, a custom inverted microscope (TE-2000, Nikon Instruments) with Xe arc lamp and thin film tunable filter array (VersaChrome, Semrock, Inc.) were used to acquire hyperspectral image data from each sample. Scans utilized excitation wavelengths from 340 nm to 550 nm in 5 nm increments. Hyperspectral images were analyzed with custom Matlab scripts including linear spectral unmixing (LSU), principal component analysis (PCA), and Gaussian mixture modeling (GMM). Spectra were examined for potential characteristic features such as consistent intensity peaks at specific wavelengths or intensity ratios among significant wavelengths. The resultant spectral features were conserved among tissues of similar molecular composition. Additionally, excitation spectra appear to be a mixture of pure endmembers with commonalities across tissues of varied molecular composition, potentially identifiable through GMM. These results suggest the presence of common autofluorescent molecules in most tissues and that excitation-scanning hyperspectral imaging may serve as an approach for characterizing tissue composition as well as pathologic state. Future work will test the feasibility of excitation-scanning hyperspectral imaging as a contrast mode for discriminating normal and pathological tissues.
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Affiliation(s)
- Joshua Deal
- Chemical & Biomolecular Engineering, University of South Alabama
- Center for Lung Biology, University of South Alabama
| | - Peter F Favreau
- Medical Engineering, Morgridge Institute for Research, University of Wisconsin
| | - Carmen Lopez
- College of Medicine, University of South Alabama
| | - Malvika Lall
- Department of Biomedical Sciences, University of South Alabama
| | - David S Weber
- Physiology & Cell Biology, University of South Alabama
| | - Thomas C Rich
- Center for Lung Biology, University of South Alabama
- Pharmacology, University of South Alabama
| | - Silas J Leavesley
- Chemical & Biomolecular Engineering, University of South Alabama
- Center for Lung Biology, University of South Alabama
- Pharmacology, University of South Alabama
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26
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Jamal F, Dikhit MR, Singh MK, Shivam P, Kumari S, Pushpanjali S, Dubey AK, Kumar P, Narayan S, Gupta AK, Pandey K, Das VNR, Bimal S, Das P, Singh SK. Identification of B-cell Epitope of Leishmania donovani and its application in diagnosis of visceral leishmaniasis. J Biomol Struct Dyn 2016; 35:3569-3580. [PMID: 27892844 DOI: 10.1080/07391102.2016.1263240] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
Abstract
Diagnosis of visceral leishmaniasis (VL) is often hindered by cross-reactions with antigens from other related parasite infections. This study aimed to develop an immunochromatographic test (ICT) which can detect the antigen present in circulating immune complexes (CICs) of VL patients using B-cell epitope-specific antibodies. MS analysis of six immunoreactive 2DE spots revealed two epitopes i.e. RFFVQGDGIGQHSLQEALERR (P1) and RRVAVLVLLDRL (P2) (From a hypothetical protein [Acc No: XP_003861458.1]). The epitope conservancy analysis suggested that the linear epitope (P1P2) is 97-100% conserved among Leishmania species and diverged from Homo sapiens (61% query coverage and 80% identity). Further, immunoinformatics analysis of hydrophilicity and flexibility confirmed the antigenicity of the peptide fragment. The linear epitope (P1P2) was synthesized (98% purity) and the purity was confirmed by high-performance liquid chromatography and MS. The indirect Enzyme linked immunosorbent assay results confirmed the presence of the corresponding antibody in VL patient's sera but not in those of healthy and other diseases. The result demonstrated a sensitivity 90%; Se Cl95% (82.16-96.27)% and specificity 100%; Sp Cl95% (84.56-100)% which indicated the possibility to be used as a diagnostic tool. Sensitivity, specificity, and diagnostic efficiency of colloidal gold conjugated anti-P1P2 antibody ICT strip was 100, 95.2, and 96.7%, respectively, which is slightly better as compared to other ICT for VL. Though, our result indicated the utility of anti-P1P2 antibody to detect CICs epitopes, a large-scale inspection in endemic and non-endemic area and in different ethnic population is needed for its validation and authentication.
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Affiliation(s)
- Fauzia Jamal
- a Department of Microbiology , Rajendra Memorial Research Institute of Medical Sciences , Patna 800007 , India
| | - Manas Ranjan Dikhit
- b Department of Bioinformatics , Rajendra Memorial Research Institute of Medical Sciences , Patna 800007 , India
| | - Manish K Singh
- a Department of Microbiology , Rajendra Memorial Research Institute of Medical Sciences , Patna 800007 , India
| | - Pushkar Shivam
- a Department of Microbiology , Rajendra Memorial Research Institute of Medical Sciences , Patna 800007 , India
| | - Sarita Kumari
- a Department of Microbiology , Rajendra Memorial Research Institute of Medical Sciences , Patna 800007 , India
| | - Sinha Pushpanjali
- a Department of Microbiology , Rajendra Memorial Research Institute of Medical Sciences , Patna 800007 , India
| | - Amit K Dubey
- a Department of Microbiology , Rajendra Memorial Research Institute of Medical Sciences , Patna 800007 , India.,c Department of Biotechnology , National Institute of Pharmaceutical Education and Research , Hajipur 844102 , India
| | - Prakash Kumar
- c Department of Biotechnology , National Institute of Pharmaceutical Education and Research , Hajipur 844102 , India
| | - Shyam Narayan
- a Department of Microbiology , Rajendra Memorial Research Institute of Medical Sciences , Patna 800007 , India
| | - Anil K Gupta
- a Department of Microbiology , Rajendra Memorial Research Institute of Medical Sciences , Patna 800007 , India
| | - Krishna Pandey
- d Department of Clinical Medicine , Rajendra Memorial Research Institute of Medical Sciences , Patna 800007 , India
| | - V N R Das
- d Department of Clinical Medicine , Rajendra Memorial Research Institute of Medical Sciences , Patna 800007 , India
| | - Sanjiva Bimal
- e Department of Immunology , Rajendra Memorial Research Institute of Medical Sciences , Patna 800007 , India
| | - Pradeep Das
- f Department of Molecular Biology , Rajendra Memorial Research Institute of Medical Sciences , Patna 800007 , India
| | - Shubhankar K Singh
- a Department of Microbiology , Rajendra Memorial Research Institute of Medical Sciences , Patna 800007 , India
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Chen K, Zeng Y, Wang L, Gu D, He J, Wu SY, Ho HP, Li X, Qu J, Gao BZ, Shao Y. Fast spectral surface plasmon resonance imaging sensor for real-time high-throughput detection of biomolecular interactions. JOURNAL OF BIOMEDICAL OPTICS 2016; 21:127003. [PMID: 27936268 DOI: 10.1117/1.jbo.21.12.127003] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/03/2016] [Accepted: 11/18/2016] [Indexed: 06/06/2023]
Abstract
A fast surface plasmon resonance (SPR) imaging biosensor system based on wavelength interrogation using a liquid crystal tunable filter (LCTF) is presented. The system combines the merits of wide-dynamic detection range offered by the spectral approach and multiplexed high-throughput data collection with a two-dimensional (2-D) biosensor array. The key feature of the reported scheme is a feedback loop that drives the LCTF to achieve fast tracking of the SPR dip movement caused by the binding of target molecules to the sensor surface. Experimental results show that the system is capable of completing an SPR dip measurement within 4 s. Based on using a spectral window of about 100 nm, the experimental dynamic detection range and refractive index resolution are 4.63×10?2??RIU and 5.87×10?6??RIU, respectively. As also demonstrated herein using 2-D microsensor arrays, among the spectral SPR sensors, the reported system is most suitable for multiplexed label-free biosensing applications.
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Affiliation(s)
- Kaiqiang Chen
- Shenzhen University, College of Optoelectronic Engineering, Key Laboratory of Optoelectronic Devices and Systems of Ministry of Education and Guangdong Province, Shenzhen Key Laboratory of Sensor Technology, Shenzhen 518060, China
| | - Youjun Zeng
- Shenzhen University, College of Optoelectronic Engineering, Key Laboratory of Optoelectronic Devices and Systems of Ministry of Education and Guangdong Province, Shenzhen Key Laboratory of Sensor Technology, Shenzhen 518060, China
| | - Lei Wang
- Shenzhen University, College of Optoelectronic Engineering, Key Laboratory of Optoelectronic Devices and Systems of Ministry of Education and Guangdong Province, Shenzhen Key Laboratory of Sensor Technology, Shenzhen 518060, China
| | - Dayong Gu
- Shenzhen Entry-Exit Inspection and Quarantine Bureau, Shenzhen 518033, China
| | - Jianan He
- Shenzhen Entry-Exit Inspection and Quarantine Bureau, Shenzhen 518033, China
| | - Shu-Yuen Wu
- Chinese University of Hong Kong, Department of Electronic Engineering, Shatin, NT, Hong Kong
| | - Ho-Pui Ho
- Chinese University of Hong Kong, Department of Electronic Engineering, Shatin, NT, Hong Kong
| | - Xuejin Li
- Shenzhen University, College of Optoelectronic Engineering, Key Laboratory of Optoelectronic Devices and Systems of Ministry of Education and Guangdong Province, Shenzhen Key Laboratory of Sensor Technology, Shenzhen 518060, China
| | - Junle Qu
- Shenzhen University, College of Optoelectronic Engineering, Key Laboratory of Optoelectronic Devices and Systems of Ministry of Education and Guangdong Province, Shenzhen Key Laboratory of Sensor Technology, Shenzhen 518060, China
| | - Bruce Zhi Gao
- Clemson University, Department of Bioengineering and COMSET, Clemson, South Carolina 29634, United States
| | - Yonghong Shao
- Shenzhen University, College of Optoelectronic Engineering, Key Laboratory of Optoelectronic Devices and Systems of Ministry of Education and Guangdong Province, Shenzhen Key Laboratory of Sensor Technology, Shenzhen 518060, China
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Amarillas L, Chaidez C, González-Robles A, Lugo-Melchor Y, León-Félix J. Characterization of novel bacteriophage phiC119 capable of lysing multidrug-resistant Shiga toxin-producing Escherichia coli O157:H7. PeerJ 2016; 4:e2423. [PMID: 27672499 PMCID: PMC5028729 DOI: 10.7717/peerj.2423] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/15/2016] [Accepted: 08/09/2016] [Indexed: 12/22/2022] Open
Abstract
BACKGROUND Shiga toxin-producing Escherichia coli (STEC) is one of the most common and widely distributed foodborne pathogens that has been frequently implicated in gastrointestinal and urinary tract infections. Moreover, high rates of multiple antibiotic-resistant E. coli strains have been reported worldwide. Due to the emergence of antibiotic-resistant strains, bacteriophages are considered an attractive alternative to biocontrol pathogenic bacteria. Characterization is a preliminary step towards designing a phage for biocontrol. METHODS In this study, we describe the characterization of a bacteriophage designated phiC119, which can infect and lyse several multidrug-resistant STEC strains and some Salmonella strains. The phage genome was screened to detect the stx-genes using PCR, morphological analysis, host range was determined, and genome sequencing were carried out, as well as an analysis of the cohesive ends and identification of the type of genetic material through enzymatic digestion of the genome. RESULTS Analysis of the bacteriophage particles by transmission electron microscopy showed that it had an icosahedral head and a long tail, characteristic of the family Siphoviridae. The phage exhibits broad host range against multidrug-resistant and highly virulent E. coli isolates. One-step growth experiments revealed that the phiC119 phage presented a large burst size (210 PFU/cell) and a latent period of 20 min. Based on genomic analysis, the phage contains a linear double-stranded DNA genome with a size of 47,319 bp. The phage encodes 75 putative proteins, but lysogeny and virulence genes were not found in the phiC119 genome. CONCLUSION These results suggest that phage phiC119 may be a good biological control agent. However, further studies are required to ensure its control of STEC and to confirm the safety of phage use.
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Affiliation(s)
- Luis Amarillas
- Laboratorio de Biología Molecular y Genómica Funcional, Centro de Investigación en Alimentación y Desarrollo, A. C., Culiacán, Sinaloa, México; Laboratorio de Genética, Instituto de Investigación Lightbourn, A. C., Cd. Jiménez, Chihuahua, México
| | - Cristóbal Chaidez
- Inocuidad Alimentaria, Centro de Investigación en Alimentación y Desarrollo, A. C. , Culiacán, Sinaloa , México
| | - Arturo González-Robles
- Departamento de Infectómica y Patogénesis Molecular, Centro de Investigación y de Estudios Avanzados, Instituto Politécnico Nacional , Ciudad de México , México
| | - Yadira Lugo-Melchor
- Laboratorio de Biología Molecular de la Unidad de Servicios Analíticos y Metrológicos, Centro de Investigación y Asistencia en Tecnología y Diseño del Estado de Jalisco A. C. , Guadalajara, Jalisco , México
| | - Josefina León-Félix
- Laboratorio de Biología Molecular y Genómica Funcional, Centro de Investigación en Alimentación y Desarrollo, A. C. , Culiacán, Sinaloa , México
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Kyoui D, Hirokawa E, Takahashi H, Kuda T, Kimura B. Effect of glucose on Listeria monocytogenes biofilm formation, and assessment of the biofilm's sanitation tolerance. BIOFOULING 2016; 32:815-826. [PMID: 27353113 DOI: 10.1080/08927014.2016.1198953] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/09/2015] [Accepted: 05/28/2016] [Indexed: 06/06/2023]
Abstract
Listeria monocytogenes is an important cause of human foodborne infections and its ability to form biofilms is a serious concern to the food industry. To reveal the effect of glucose conditions on biofilm formation of L. monocytogenes, 20 strains were investigated under three glucose conditions (0.1, 1.0, and 2.0% w v(-1)) by quantifying the number of cells in the biofilm and observing the biofilm structure after incubation for 24, 72, and 168 h. In addition, the biofilms were examined for their sensitivity to sodium hypochlorite. It was found that high concentrations of glucose reduced the number of viable cells in the biofilms and increased extracellular polymeric substance production. Moreover, biofilms formed at a glucose concentration of 1.0 or 2.0% were more resistant to sodium hypochlorite than those formed at a glucose concentration of 0.1%. This knowledge can be used to help design the most appropriate sanitation strategy.
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Affiliation(s)
- Daisuke Kyoui
- a Department of Food Science and Technology, Faculty of Marine Science , Tokyo University of Marine Science and Technology , Tokyo , Japan
| | - Eri Hirokawa
- a Department of Food Science and Technology, Faculty of Marine Science , Tokyo University of Marine Science and Technology , Tokyo , Japan
| | - Hajime Takahashi
- a Department of Food Science and Technology, Faculty of Marine Science , Tokyo University of Marine Science and Technology , Tokyo , Japan
| | - Takashi Kuda
- a Department of Food Science and Technology, Faculty of Marine Science , Tokyo University of Marine Science and Technology , Tokyo , Japan
| | - Bon Kimura
- a Department of Food Science and Technology, Faculty of Marine Science , Tokyo University of Marine Science and Technology , Tokyo , Japan
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30
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Tuma Z, Kuncova J, Mares J, Grundmanova M, Matejovic M. Proteomic approaches to the study of renal mitochondria. Biomed Pap Med Fac Univ Palacky Olomouc Czech Repub 2016; 160:173-82. [DOI: 10.5507/bp.2016.012] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/12/2015] [Accepted: 03/03/2016] [Indexed: 12/14/2022] Open
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31
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Hassan D, Provansal M, Lehmann S, Rizk M, Moez P, Vialaret J, Hirtz C, Essa A, Agamia H. Proteomic profile of cerebrospinal fluid in patients with multiple sclerosis using two dimensional gel electrophoresis. Br J Biomed Sci 2016; 73:143-146. [PMID: 27254308 DOI: 10.1080/09674845.2016.1186310] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
Affiliation(s)
- Dina Hassan
- a Faculty of Medicine, Department of Clinical Pathology , Alexandria University , Alexandria , Egypt
| | - Monique Provansal
- b CHRU de Montpellier and Université de Montpellier, IRMB, Laboratoire de Biochimie Protéomique Clinique , Montpellier , France
| | - Sylvain Lehmann
- b CHRU de Montpellier and Université de Montpellier, IRMB, Laboratoire de Biochimie Protéomique Clinique , Montpellier , France
| | - Moustafa Rizk
- a Faculty of Medicine, Department of Clinical Pathology , Alexandria University , Alexandria , Egypt
| | - Pacint Moez
- a Faculty of Medicine, Department of Clinical Pathology , Alexandria University , Alexandria , Egypt
| | - Jerome Vialaret
- b CHRU de Montpellier and Université de Montpellier, IRMB, Laboratoire de Biochimie Protéomique Clinique , Montpellier , France
| | - Christophe Hirtz
- b CHRU de Montpellier and Université de Montpellier, IRMB, Laboratoire de Biochimie Protéomique Clinique , Montpellier , France
| | - Ayman Essa
- c Faculty of Medicine, Department of Neuropsychiatry , Alexandria University , Alexandria , Egypt
| | - Hussein Agamia
- d Faculty of Medicine, Department of Anesthesia and Surgical Care , Alexandria University , Alexandria , Egypt
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32
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Takeda M, Matsumura AT, Kurosaki K, Chhetri RT, Motomatsu S, Suzuki I, Sahabi DM. An enantioselective NADP+-dependent alcohol dehydrogenase responsible for cooxidative production of (3S)-5-hydroxy-3-methyl-pentanoic acid. Biosci Biotechnol Biochem 2016; 80:1155-63. [DOI: 10.1080/09168451.2016.1148578] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
Abstract
Abstract
A soil bacterium, Mycobacterium sp. B-009, is able to grow on racemic 1,2-propanediol (PD). The strain was revealed to oxidize 3-methyl-1,5-pentanediol (MPD) to 5-hydroxy-3-methyl-pentanoic acid (HMPA) during growth on PD. MPD was converted into an almost equimolar amount of the S-form of HMPA (S-HMPA) at 72%ee, suggesting the presence of an enantioselective MPD dehydrogenase (MPD-DH). As expected, an NADP+-dependent alcohol dehydrogenase, which catalyzes the initial step of MPD oxidation, was detected and purified from the cell-free extract. This enzyme was suggested to be a homodimeric medium-chain alcohol dehydrogenase/reductase (MDR). The catalytic and kinetic parameters indicated that MPD is the most suitable substrate for the enzyme. The enzyme was encoded by a 1047-bp gene (mpd1) and several mycobacterial strains were found to have putative MDR genes similar to mpd1. In a phylogenetic tree, MPD-DH formed an independent clade together with the putative MDR of Mycobacterium neoaurum, which produces opportunistic infections.
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Affiliation(s)
- Minoru Takeda
- Graduate School of Engineering, Yokohama National University, Yokohama, Japan
| | | | - Kaishi Kurosaki
- Graduate School of Engineering, Yokohama National University, Yokohama, Japan
| | - Rajan Thapa Chhetri
- Graduate School of Engineering, Yokohama National University, Yokohama, Japan
| | - Shigekazu Motomatsu
- Graduate School of Engineering, Yokohama National University, Yokohama, Japan
| | - Ichiro Suzuki
- Graduate School of Engineering, Yokohama National University, Yokohama, Japan
| | - Danladi Mahuta Sahabi
- Graduate School of Engineering, Yokohama National University, Yokohama, Japan
- Department of Biochemistry, Usmanu Danfodiyo University, Sokoto, Nigeria
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Miyara M, Umeda K, Ishida K, Sanoh S, Kotake Y, Ohta S. Protein extracts from cultured cells contain nonspecific serum albumin. Biosci Biotechnol Biochem 2016; 80:1164-7. [DOI: 10.1080/09168451.2016.1151338] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Abstract
Abstract
Serum is an important component of cell culture media. The present study demonstrates contamination of intracellular protein extract by bovine serum albumin from the culture media and illustrates how this contamination can cause the misinterpretation of western blot results. Preliminary experiments can prevent the misinterpretation of some experimental results, and optimization of the washing process may enable specific protein detection.
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Affiliation(s)
- Masatsugu Miyara
- Graduate School of Biomedical and Health Sciences, Hiroshima University, Hiroshima, Japan
- Japan Society for the Promotion of Science, Tokyo, Japan
| | - Kanae Umeda
- Graduate School of Biomedical and Health Sciences, Hiroshima University, Hiroshima, Japan
| | - Keishi Ishida
- Graduate School of Biomedical and Health Sciences, Hiroshima University, Hiroshima, Japan
- Japan Society for the Promotion of Science, Tokyo, Japan
| | - Seigo Sanoh
- Graduate School of Biomedical and Health Sciences, Hiroshima University, Hiroshima, Japan
| | - Yaichiro Kotake
- Graduate School of Biomedical and Health Sciences, Hiroshima University, Hiroshima, Japan
| | - Shigeru Ohta
- Graduate School of Biomedical and Health Sciences, Hiroshima University, Hiroshima, Japan
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Bain MM, Nys Y, Dunn I. Increasing persistency in lay and stabilising egg quality in longer laying cycles. What are the challenges? Br Poult Sci 2016; 57:330-8. [PMID: 26982003 PMCID: PMC4940894 DOI: 10.1080/00071668.2016.1161727] [Citation(s) in RCA: 148] [Impact Index Per Article: 18.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 01/14/2016] [Indexed: 10/27/2022]
Abstract
In the past 50 years, selection starting initially at the breed level and then using quantitative genetics coupled with a sophisticated breeding pyramid, has resulted in a very productive hybrid for a variety of traits associated with egg production. One major trait currently being developed further is persistency of lay and the concept of the "long life" layer. Persistency in lay however cannot be achieved without due consideration of how to sustain egg quality and the health and welfare of the birds in longer laying cycles. These multiple goals require knowledge and consideration of the bird's physiology, nutritional requirements, which vary depending on age and management system, reproductive status and choice of the selection criteria applied. The recent advent of molecular genetics offers considerable hope that these multiple elements can be balanced for the good of all in the industry including the hens. The "long life" layer, which will be capable of producing 500 eggs in a laying cycle of 100 weeks, is therefore on the horizon, bringing with it the benefits of a more efficient utilisation of diminishing resources, including land, water, raw materials for feed as well as a reduction in waste, and an overall reduced carbon footprint.
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Affiliation(s)
- M. M. Bain
- IBAHCM, College of MVLS, University of Glasgow, Bearsden, Glasgow, Scotland, UK
| | - Y. Nys
- INRA, UR83 Recherches Avicoles, Nouzilly, France
| | - I.C. Dunn
- Roslin Institute and Royal (Dick) School of Veterinary Studies, University of Edinburgh, Easter Bush, Midlothian, Scotland, UK
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Zhou Y, Zhou L, Ruan Z, Mi S, Jiang M, Li X, Wu X, Deng Z, Yin Y. Chlorogenic acid ameliorates intestinal mitochondrial injury by increasing antioxidant effects and activity of respiratory complexes. Biosci Biotechnol Biochem 2016; 80:962-71. [DOI: 10.1080/09168451.2015.1127130] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
Abstract
Dietary polyphenols are thought to be beneficial for human health by acting as antioxidants. Chlorogenic acid (CGA) is abundant in plant-based foods as an ester of caffeic acid and quinic acid. In this study, we investigated the effects of CGA on mitochondrial protection. Our results demonstrated that pretreatment with CGA ameliorated the intestinal mitochondrial injury induced by H2O2; membrane potential was increased, mitochondrial swelling, levels of reactive oxygen species, contents of 8-hydroxy-2-deoxyguanosine, and cytochrome c released were decreased. The beneficial effects of CGA were accompanied by an increase in antioxidant and respiratory-chain complex I, IV, and V activities. In trinitrobenzene-sulfonic acid-induced colitic rats indicated that CGA supplementation improved mitochondria ultrastructure and decreased mitochondrial injury. Our results suggest a promising role for CGA as a mitochondria-targeted antioxidant in combating intestinal oxidative injury. Daily intake of diets containing CGA, such as coffee and honeysuckle, may be useful for prevention of intestinal diseases.
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Affiliation(s)
- Yan Zhou
- State Key Laboratory of Food Science and Technology, Nanchang University, Nanchang, China
- College of Food Science and Technology, Nanchang University, Nanchang, China
| | - Lili Zhou
- State Key Laboratory of Food Science and Technology, Nanchang University, Nanchang, China
- College of Food Science and Technology, Nanchang University, Nanchang, China
| | - Zheng Ruan
- State Key Laboratory of Food Science and Technology, Nanchang University, Nanchang, China
- College of Food Science and Technology, Nanchang University, Nanchang, China
| | - Shumei Mi
- State Key Laboratory of Food Science and Technology, Nanchang University, Nanchang, China
- College of Food Science and Technology, Nanchang University, Nanchang, China
| | - Min Jiang
- State Key Laboratory of Food Science and Technology, Nanchang University, Nanchang, China
- College of Food Science and Technology, Nanchang University, Nanchang, China
| | - Xiaolan Li
- State Key Laboratory of Food Science and Technology, Nanchang University, Nanchang, China
- College of Food Science and Technology, Nanchang University, Nanchang, China
| | - Xin Wu
- Institute of Subtropical Agriculture, Chinese Academy of Sciences, Changsha, China
| | - Zeyuan Deng
- State Key Laboratory of Food Science and Technology, Nanchang University, Nanchang, China
- College of Food Science and Technology, Nanchang University, Nanchang, China
| | - Yulong Yin
- State Key Laboratory of Food Science and Technology, Nanchang University, Nanchang, China
- College of Food Science and Technology, Nanchang University, Nanchang, China
- Institute of Subtropical Agriculture, Chinese Academy of Sciences, Changsha, China
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36
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Kumar A, Sharma A, Kaur G, Makkar P, Kaur J. Functional characterization of hypothetical proteins of Mycobacterium tuberculosis with possible esterase/lipase signature: a cumulative in silico and in vitro approach. J Biomol Struct Dyn 2016; 35:1226-1243. [DOI: 10.1080/07391102.2016.1174738] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Affiliation(s)
- Arbind Kumar
- Department of Biotechnology, Panjab University, Chandigarh 160014, India
| | - Aashish Sharma
- Department of Biotechnology, Panjab University, Chandigarh 160014, India
| | - Gurkamaljit Kaur
- Department of Biotechnology, Panjab University, Chandigarh 160014, India
| | - Pooja Makkar
- Department of Biotechnology, Panjab University, Chandigarh 160014, India
| | - Jagdeep Kaur
- Department of Biotechnology, Panjab University, Chandigarh 160014, India
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Ji W, Sun G, Duan X, Dong B, Bian Y. Cloning of the growth hormone receptor and its muscle-specific mRNA expression in black Muscovy duck (Cairina moschata). Br Poult Sci 2016; 57:211-8. [DOI: 10.1080/00071668.2015.1135504] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
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Landey-Álvarez MA, Ochoa-Terán A, Pina-Luis G, Martínez-Quiroz M, Aguilar-Martínez M, Elías-García J, Miranda-Soto V, Ramírez JZ, Machi-Lara L, Labastida-Galván V, Ordoñez M. Novel naphthalimide–aminobenzamide dyads as OFF/ON fluorescent supramolecular receptors in metal ion binding. Supramol Chem 2016. [DOI: 10.1080/10610278.2016.1149180] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Affiliation(s)
- Marco A. Landey-Álvarez
- Centro de Graduados e Investigación en Química, Instituto Tecnológico de Tijuana, Tijuana, Mexico
| | - Adrián Ochoa-Terán
- Centro de Graduados e Investigación en Química, Instituto Tecnológico de Tijuana, Tijuana, Mexico
| | - Georgina Pina-Luis
- Centro de Graduados e Investigación en Química, Instituto Tecnológico de Tijuana, Tijuana, Mexico
| | - Marisela Martínez-Quiroz
- Centro de Graduados e Investigación en Química, Instituto Tecnológico de Tijuana, Tijuana, Mexico
| | | | - José Elías-García
- Unidad Académica de Ciencias Químicas, Universidad Autónoma de Zacatecas, Zacatecas, Mexico
| | - Valentín Miranda-Soto
- Centro de Graduados e Investigación en Química, Instituto Tecnológico de Tijuana, Tijuana, Mexico
| | - José-Zeferino Ramírez
- Departamento de Investigación en Polímeros y Materiales, Universidad de Sonora, Hermosillo, Mexico
| | - Lorena Machi-Lara
- Departamento de Investigación en Polímeros y Materiales, Universidad de Sonora, Hermosillo, Mexico
| | - Victoria Labastida-Galván
- Centro de Investigaciones Químicas-(IICBA), Universidad Autónoma del Estado de Morelos, Cuernavaca, Mexico
| | - Mario Ordoñez
- Centro de Investigaciones Químicas-(IICBA), Universidad Autónoma del Estado de Morelos, Cuernavaca, Mexico
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39
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Noshi M, Hatanaka R, Tanabe N, Terai Y, Maruta T, Shigeoka S. Redox regulation of ascorbate and glutathione by a chloroplastic dehydroascorbate reductase is required for high-light stress tolerance in Arabidopsis. Biosci Biotechnol Biochem 2016; 80:870-7. [PMID: 26927949 DOI: 10.1080/09168451.2015.1135042] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Abstract
Chloroplasts are a significant site for reactive oxygen species production under illumination and, thus, possess a well-organized antioxidant system involving ascorbate. Ascorbate recycling occurs in different manners in this system, including a dehydroascorbate reductase (DHAR) reaction. We herein investigated the physiological significance of DHAR3 in photo-oxidative stress tolerance in Arabidopsis. GFP-fused DHAR3 protein was targeted to chloroplasts in Arabidopsis leaves. A DHAR3 knockout mutant exhibited sensitivity to high light (HL). Under HL, the ascorbate redox states were similar in mutant and wild-type plants, while total ascorbate content was significantly lower in the mutant, suggesting that DHAR3 contributes, at least to some extent, to ascorbate recycling. Activation of monodehydroascorbate reductase occurred in dhar3 mutant, which might compensate for the lack of DHAR3. Interestingly, glutathione oxidation was consistently inhibited in dhar3 mutant. These findings indicate that DHAR3 regulates both ascorbate and glutathione redox states to acclimate to HL.
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Affiliation(s)
- Masahiro Noshi
- a Faculty of Agriculture, Department of Advanced Bioscience , Kinki University , Nara , Japan
| | - Risa Hatanaka
- a Faculty of Agriculture, Department of Advanced Bioscience , Kinki University , Nara , Japan
| | - Noriaki Tanabe
- a Faculty of Agriculture, Department of Advanced Bioscience , Kinki University , Nara , Japan
| | - Yusuke Terai
- b Faculty of Life and Environmental Science, Department of Life Science and Biotechnology , Shimane University , Matsue , Japan
| | - Takanori Maruta
- b Faculty of Life and Environmental Science, Department of Life Science and Biotechnology , Shimane University , Matsue , Japan
| | - Shigeru Shigeoka
- a Faculty of Agriculture, Department of Advanced Bioscience , Kinki University , Nara , Japan
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40
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Huang L, van Loveren C, Ling J, Wei X, Crielaard W, Deng DM. Epithelial cell detachment by Porphyromonas gingivalis biofilm and planktonic cultures. BIOFOULING 2016; 32:489-496. [PMID: 26963862 DOI: 10.1080/08927014.2016.1148693] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/05/2023]
Abstract
Porphyromonas gingivalis is present as a biofilm at the sites of periodontal infections. The detachment of gingival epithelial cells induced by P. gingivalis biofilms was examined using planktonic cultures as a comparison. Exponentially grown planktonic cultures or 40-h biofilms were co-incubated with epithelial cells in a 24-well plate for 4 h. Epithelial cell detachment was assessed using imaging. The activity of arginine-gingipain (Rgp) and gene expression profiles of P. gingivalis cultures were examined using a gingipain assay and quantitative PCR, respectively. P. gingivalis biofilms induced significantly higher cell detachment and displayed higher Rgp activity compared to the planktonic cultures. The genes involved in gingipain post-translational modification, but not rgp genes, were significantly up-regulated in P. gingivalis biofilms. The results underline the importance of including biofilms in the study of bacterial and host cell interactions.
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Affiliation(s)
- Lijia Huang
- a Department of Operative Dentistry and Endodontics , Guanghua School of Stomatology, Sun Yat-sen University , Guangzhou , PR China
- b Department of Preventive Dentistry , Academic Centre for Dentistry Amsterdam (ACTA), University of Amsterdam and VU University Amsterdam , Amsterdam , The Netherlands
| | - Cor van Loveren
- b Department of Preventive Dentistry , Academic Centre for Dentistry Amsterdam (ACTA), University of Amsterdam and VU University Amsterdam , Amsterdam , The Netherlands
| | - Junqi Ling
- a Department of Operative Dentistry and Endodontics , Guanghua School of Stomatology, Sun Yat-sen University , Guangzhou , PR China
- c Guangdong Provincial Key Laboratory of Stomatology , Sun Yat-sen University , Guangzhou , PR China
| | - Xi Wei
- a Department of Operative Dentistry and Endodontics , Guanghua School of Stomatology, Sun Yat-sen University , Guangzhou , PR China
| | - Wim Crielaard
- b Department of Preventive Dentistry , Academic Centre for Dentistry Amsterdam (ACTA), University of Amsterdam and VU University Amsterdam , Amsterdam , The Netherlands
| | - Dong Mei Deng
- b Department of Preventive Dentistry , Academic Centre for Dentistry Amsterdam (ACTA), University of Amsterdam and VU University Amsterdam , Amsterdam , The Netherlands
- c Guangdong Provincial Key Laboratory of Stomatology , Sun Yat-sen University , Guangzhou , PR China
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41
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Ueda S, Kokaji Y, Simizu S, Honda K, Yoshino KI, Kamisoyama H, Shirai Y, Yamanoue M. Chicken heat shock protein HSPB1 increases and interacts with αB-crystallin in aged skeletal muscle. Biosci Biotechnol Biochem 2015; 79:1867-75. [DOI: 10.1080/09168451.2015.1061419] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Abstract
Abstract
International trading markets of meat require the animal’s age information to prevent cross-contamination of ineligible meat products. Individual livestock age is either evaluated from physiological features or verified by breeding history. However, it remains impossible to perform age verification on meat when a suspicion of error occurred in the importing country. To investigate an age-related protein in skeletal muscle of livestock, we compared protein expression among chicken pectoralis major of different ages. Results indicated that the level of expression of chicken HSPB1, one of the small heat shock proteins, was increased in aged muscles. On the other hand, other heat shock proteins, heat shock factors, and myosin heavy chain isoform did not change the expression levels in aged chicken muscle. In addition, we identified that αB-crystallin interacted with HSPB1 in aged chicken muscle. These results suggest that HSPB1 protein forms complexes with αB-crystallin in aged chicken muscle and suppose to become the candidate of age-related bio-marker for verifying the age of chicken meat.
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Affiliation(s)
- Shuji Ueda
- Department of Agrobioscience, Graduate School of Agricultural Science, Kobe University, Kobe, Japan
| | - Yoshito Kokaji
- Department of Agrobioscience, Graduate School of Agricultural Science, Kobe University, Kobe, Japan
| | - Shunsaku Simizu
- Department of Agrobioscience, Graduate School of Agricultural Science, Kobe University, Kobe, Japan
| | - Kazuhisa Honda
- Department of Bioresource Science, Graduate School of Agricultural Science, Kobe University, Kobe, Japan
| | - Ken-ichi Yoshino
- Laboratory of Molecular Pharmacology, Biosignal Research Center, Kobe University, Kobe, Japan
| | - Hiroshi Kamisoyama
- Department of Bioresource Science, Graduate School of Agricultural Science, Kobe University, Kobe, Japan
| | - Yasuhito Shirai
- Department of Agrobioscience, Graduate School of Agricultural Science, Kobe University, Kobe, Japan
| | - Minoru Yamanoue
- Department of Agrobioscience, Graduate School of Agricultural Science, Kobe University, Kobe, Japan
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Jamil M, Wang W, Xu M, Tu J. Exploring the roles of basal transcription factor 3 in eukaryotic growth and development. Biotechnol Genet Eng Rev 2015; 31:21-45. [PMID: 26428578 DOI: 10.1080/02648725.2015.1080064] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
Abstract
Basal transcription factor 3 (BTF3) has been reported to play a significant part in the transcriptional regulation linking with eukaryotes growth and development. Alteration in the BTF3 gene expression patterns or variation in their activities adds to the explanation of different signaling pathways and regulatory networks. Moreover, BTF3s often respond to numerous stresses, and subsequently they are involved in regulation of various mechanisms. BTF3 proteins also function through protein-protein contact, which can assist us to identify the multifaceted processes of signaling and transcriptional regulation controlled by BTF3 proteins. In this review, we discuss current advances made in starting to explore the roles of BTF3 transcription factors in eukaryotes especially in plant growth and development.
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Affiliation(s)
- Muhammad Jamil
- a College of Agriculture and Biotechnology, Institute of Crop Science , Zhejiang University , Yu-Hang-Tang Rd. 866, Hangzhou 310058 , China.,b Department of Biotechnology and Genetic Engineering , Kohat University of Science and Technology , Kohat 26000 , Pakistan
| | - Wenyi Wang
- a College of Agriculture and Biotechnology, Institute of Crop Science , Zhejiang University , Yu-Hang-Tang Rd. 866, Hangzhou 310058 , China
| | - Mengyun Xu
- a College of Agriculture and Biotechnology, Institute of Crop Science , Zhejiang University , Yu-Hang-Tang Rd. 866, Hangzhou 310058 , China
| | - Jumin Tu
- a College of Agriculture and Biotechnology, Institute of Crop Science , Zhejiang University , Yu-Hang-Tang Rd. 866, Hangzhou 310058 , China
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43
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Yadav A, Kumar R, Sunkaria A, Singhal N, Kumar M, Sandhir R. Evaluation of potential flavonoid inhibitors of glyoxalase-I based on virtual screening and in vitro studies. J Biomol Struct Dyn 2015; 34:993-1007. [PMID: 26108947 DOI: 10.1080/07391102.2015.1064830] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
Abstract
Glyoxalase-I (GLO-I) is a component of the ubiquitous detoxification system involved in the conversion of methylglyoxal (MG) to d-lactate in the glycolytic pathway. MG toxicity arises from its ability to form advanced glycation end products. GLO-I has been reported to be frequently overexpressed in various types of cancer cells. In this study, we performed structure-based virtual screening of focused flavonoids commercial library to identify potential and specific inhibitors of GLO-I. The compounds were ranked based on Glide extra precision docking score and five hits (curcumin, quercetin, morin, naringin and silibinin) were selected on the basis of their interaction with active site amino acid residues of GLO-I. Mixed mode QM/MM calculation was performed on the top-scoring hit to ascertain the role of zinc ion in ligand binding. In addition, the identified hits were subjected to MM/GBSA binding energy prediction, ADME prediction and similarity studies. The hits were tested in vitro for cell viability, and GLO-I inhibition. Naringin (ST072162) was found to be most potent inhibitor of GLO-I among the identified hits with highest glide XP dock score of -14.906. These findings suggest that naringin could be a new scaffold for designing inhibitors against GLO-I with potential application as anticancer agents.
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Affiliation(s)
- Aarti Yadav
- a Department of Biochemistry , Panjab University , Chandigarh , India
| | - Rajnish Kumar
- b University Institute of Pharmaceutical Sciences , Panjab University , Chandigarh , India
| | - Aditya Sunkaria
- a Department of Biochemistry , Panjab University , Chandigarh , India
| | - Nitin Singhal
- c Department of Food Science and Technology , National Agri-Food Biotechnology Institute , Mohali , India
| | - Manoj Kumar
- b University Institute of Pharmaceutical Sciences , Panjab University , Chandigarh , India
| | - Rajat Sandhir
- a Department of Biochemistry , Panjab University , Chandigarh , India
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44
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Huang X, Liu B, Huan P. The sperm proteome of the Pacific oysterCrassostrea gigasand immunolocalization of heat shock proteins. INVERTEBR REPROD DEV 2015. [DOI: 10.1080/07924259.2015.1041654] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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45
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Lee DG, Nam J, Kim SW, Kang YM, An HJ, Kim CW, Choi JS. Proteomic analysis of reproduction proteins involved in litter size from porcine placenta. Biosci Biotechnol Biochem 2015; 79:1414-21. [PMID: 25921448 DOI: 10.1080/09168451.2015.1039478] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Abstract
A gel-free and label-free quantitative proteomic approach based on a spectral counting strategy was performed to discover prolificacy-related proteins. Soluble proteins of porcine placenta from small litter size group (SLSG) and large litter size group (LLSG) were extracted and subsequently applied to in-solution tryptic digestion followed by liquid chromatography-tandem mass spectrometry analysis. Six and thirteen proteins were highly expressed in SLSG and LLSG, respectively. Of the dominantly expressed proteins, we chose prolificacy-related proteins such as puromycin-sensitive aminopeptidase (PSA) and retinol-binding protein 4 (RBP4). Western blot analysis confirmed that the processed form (70 kDa) of PSA was more expressed and RBP4 (23 kDa) was dominantly expressed in LLSG. These results indicate that PSA and RBP4 are representative proteins involved in porcine fertility traits, and this finding may help to increase litter size of pigs.
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Affiliation(s)
- Dong-Gi Lee
- a Biological Disaster Analysis Group , Korea Basic Science Institute , Daejeon , Republic of Korea
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46
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Gogoi-Tiwari J, Williams V, Waryah CB, Eto KY, Tau M, Costantino P, Tiwari HK, Mukkur T. Comparative studies of the immunogenicity and protective potential of biofilm vs planktonic Staphylococcus aureus vaccine against bovine mastitis using non-invasive mouse mastitis as a model system. BIOFOULING 2015; 31:543-554. [PMID: 26293793 DOI: 10.1080/08927014.2015.1074681] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
This study was undertaken to compare the immunogenicity and protective potential of biofilm vs planktonic Staphylococcus aureus vaccine for the prevention of mastitis using the mouse as a model system. Mice immunized with formalin-killed whole cell vaccine of S. aureus residing in a biofilm when delivered via an intramammary route produced a cell mediated immune response. Mice immunized with this biofilm vaccine showed significant reductions in colonization by S. aureus in mammary glands, severity of clinical symptoms and tissue damage in mammary glands in comparison with the mice immunized with formalin-killed whole cells of planktonic S. aureus. The planktonic vaccine administered by a subcutaneous route produced a significantly higher humoral immune response (IgG1 and IgG) than the biofilm vaccine. However, considering the host response, tissue damage, the clinical severity and colonization of S. aureus in mammary glands, the biofilm vaccine performed better in immunogenicity and protective potential when administered by the intramammary route.
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Affiliation(s)
- Jully Gogoi-Tiwari
- a Faculty of Health Sciences, School of Biomedical Sciences, Curtin Health Innovation Research Institute , Curtin University , Bentley, Perth , Australia
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Dean SN, Walsh C, Goodman H, van Hoek ML. Analysis of mixed biofilm (Staphylococcus aureus and Pseudomonas aeruginosa) by laser ablation electrospray ionization mass spectrometry. BIOFOULING 2015; 31:151-161. [PMID: 25672229 DOI: 10.1080/08927014.2015.1011067] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
Pseudomonas aeruginosa and Staphylococcus aureus are ubiquitous pathogens often found together in polymicrobial, biofilm-associated infections. This study is the first to use laser ablation electrospray ionization mass spectrometry (LAESI-MS) to rapidly study bacteria within a mixed biofilm. Fast, direct, non-invasive LAESI-MS analysis of biofilm could significantly accelerate biofilm studies and provide previously unavailable information on both biofilm composition and the effects of antibiofilm treatment. LAESI-MS was applied directly to a polymicrobial biofilm and analyzed with respect to whether P. aeruginosa and S. aureus were co-localized or self-segregated within the mixed biofilm. LAESI-MS was also used to analyze ions following LL-37 antimicrobial peptide treatment of the biofilm. This ambient ionization method holds promise for future biofilm studies. The use of this innovative technique has profound implications for the study of biofilms, as LAESI-MS eliminates the need for lengthy and disruptive sample preparation while permitting rapid analysis of unfixed and wet biofilms.
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Affiliation(s)
- Scott N Dean
- a School of Systems Biology and National Center for Biodefense and Infectious Diseases , George Mason University , Manassas , VA , USA
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48
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Kusumoto T, Aoyagi M, Sugiyama T, Sakamoto J. Monitoring the enzyme expression in a respiratory chain of Corynebacterium glutamicum in a copper ion-supplemented culture medium. Biosci Biotechnol Biochem 2014; 79:223-9. [PMID: 25338939 DOI: 10.1080/09168451.2014.968089] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
Abstract
Corynebacterium glutamicum has a branched respiratory chain: one of the branches is cytochrome bcc complex and cytochrome aa3-type cytochrome c oxidase, and the other is cytochrome bd-type menaquinol oxidase. The factors that influence the expression patterns of these respiratory enzymes remain unclear. To investigate the expressional control mechanism of the enzymes, we have previously constructed a promoter assay system utilizing enhanced green fluorescence protein. Here, we monitored respiratory enzymes' expression by using this system during growth in various culture media, with and without Cu(2+) ion supplementation. The promoter activities of cytochrome aa3 oxidase in the early stationary phase in the media supplemented with Cu(2+) ion at 40 or 400 μM were significantly increased 1.49-fold or 1.99-fold, respectively, as compared to the control. Moreover, the H(+)/O ratio, or the proton-pumping activity of the cells, increased about 1.6 times by the Cu(2+) supplementation. These facts indicate that copper ions can switch the branches.
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Affiliation(s)
- Tomoichirou Kusumoto
- a Department of Bioscience and Bioinformatics , Kyushu Institute of Technology , Fukuoka , Japan
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Kamimura M, Han Y, Kito N, Che FS. Identification of interacting proteins for calcium-dependent protein kinase 8 by a novel screening system based on bimolecular fluorescence complementation. Biosci Biotechnol Biochem 2014; 78:438-47. [PMID: 25036830 DOI: 10.1080/09168451.2014.882757] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
Abstract
Protein kinases are key regulators of cell function that constitute one of the largest and most functionally diverse gene families. We developed a novel assay system, based on the bimolecular fluorescence complementation (BiFC) technique in Escherichia coli, for detecting transient interactions such as those between kinases and their substrates. This system detected the interaction between OsMEK1 and its direct target OsMAP1. By contrast, BiFC fluorescence was not observed when OsMAP2 or OsMAP3, which are not substrates of OsMEK1, were used as prey proteins. We also screened for interacting proteins of calcium-dependent protein kinase 8 (OsCPK8), a regulator of plant immune responses, and identified three proteins as interacting molecules of OsCPK8. The interaction between OsCPK8 and two of these proteins (ARF-GEF and peptidyl prolyl isomerase) was confirmed in rice cells by means of BiFC technology. These results indicate that our new assay system has the potential to screen for protein kinase target molecules.
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Affiliation(s)
- Mayu Kamimura
- a Graduate School of Bio-Science , Nagahama Institute of Bio-Science and Technology , 1266 Tamura , Nagahama, Shiga , Japan
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Petersson L, Berthet Duroure N, Auger A, Dexlin-Mellby L, Borrebaeck CA, Ait Ikhlef A, Wingren C. Generation of miniaturized planar ecombinant antibody arrays using a microcantilever-based printer. NANOTECHNOLOGY 2014; 25:275104. [PMID: 24960426 DOI: 10.1088/0957-4484/25/27/275104] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
Miniaturized (Ø 10 μm), multiplexed (>5-plex), and high-density (>100 000 spots cm(-2)) antibody arrays will play a key role in generating protein expression profiles in health and disease. However, producing such antibody arrays is challenging, and it is the type and range of available spotters which set the stage. This pilot study explored the use of a novel microspotting tool, Bioplume(TM)-consisting of an array of micromachined silicon cantilevers with integrated microfluidic channels-to produce miniaturized, multiplexed, and high-density planar recombinant antibody arrays for protein expression profiling which targets crude, directly labelled serum. The results demonstrated that 16-plex recombinant antibody arrays could be produced-based on miniaturized spot features (78.5 um(2), Ø 10 μm) at a 7-125-times increased spot density (250 000 spots cm(-2)), interfaced with a fluorescent-based read-out. This prototype platform was found to display adequate reproducibility (spot-to-spot) and an assay sensitivity in the pM range. The feasibility of the array platform for serum protein profiling was outlined.
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Affiliation(s)
- Linn Petersson
- Department of Immunotechnology, Lund University, Medicon Village, SE-22381 Lund, Sweden. CREATE Health, Lund University, Medicon Village, SE-22381 Lund, Sweden
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