scholarly journals GLIS1, a potential candidate gene affect fat deposition in sheep tail

2021 ◽  
Author(s):  
Rongsong Luo ◽  
Xiaoran Zhang ◽  
Likai Wang ◽  
Li Zhang ◽  
Guangpeng Li ◽  
...  
Keyword(s):  
Population Genomics ◽  
Fat Deposition ◽  
Potential Candidate ◽  
Mesodermal Cell ◽  
Sheep Breeds ◽  
Indigenous Sheep ◽  
Potential Candidate Gene ◽  
Study Population ◽  
Mongolian Sheep ◽  
Species Specific

AbstractFat deposition in sheep tails is as a result of a complicated mechanism. Mongolian sheep (MG) and Small Tail Han sheep (STH) are two fat-tailed Chinese indigenous sheep breeds while DairyMeade and East Friesian (DS) are two thin-tailed dairy sheep breeds recently introduced to China. In this study, population genomics analysis was applied to identify candidate genes associated with sheep tails based on an in-depth whole-genome sequencing of MG, STH and DS. The selective signature analysis demonstrated that GLIS1, LOC101117953, PDGFD and T were in the significant divergent regions between DS and STH–MG. A nonsynonymous point mutation (g.27807636G>T) was found within GLIS1 in STH–MG and resulted in a Pro to Thr substitution. As a pro-adipogenic factor, GLIS1 may play critical roles in the mesodermal cell differentiation during fetal development affecting fat deposition in sheep tails. This study gives a new insight into the genetic basis of species-specific traits of sheep tails.

scholarly journals GLIS1, a Potential Candidate Gene Affect Fat Deposition in Sheep Tail

2021 ◽  
Author(s):  
Rongsong luo ◽  
Xiaoran Zhang ◽  
Likai Wang ◽  
Li Zhang ◽  
Guangpeng Li ◽  
...  
Keyword(s):  
Genetic Basis ◽  
Population Genomics ◽  
Fat Deposition ◽  
Potential Candidate ◽  
Fat Tails ◽  
Mesodermal Cell ◽  
Potential Candidate Gene ◽  
Species Specific ◽  
Insight Into ◽  
High Depth

Abstract Fat deposition in sheep tails has complicated mechanisms. In this study, the population genomics analysis has been applied to identify candidate genes associated with fat tails based on high depth whole-genome sequencing of Mongolia sheep (MG, fat-tailed), Small Tail Han sheep (STH, fat-tailed) and two dairy sheep breeds DairyMeade and East Friesian (DS, thin-tailed). The selective signature analysis demonstrated that GLIS1, LOC101117953, PDGFD and T were in the significant divergent regions between DS and STH-MG. A nonsynonymous point mutation (g. 27807636G>T) was found within GLIS1 in STH-MG and resulting in a Pro to Thr substitution. As a pro-adipogenic factor, GLIS1 may play critical roles in the mesodermal cell differentiation during sheep fetal development and affect the fat deposition in sheep tails. This study provides a new insight into the genetic basis of species-specific traits of fat tails.

scholarly journals Genome-wide genetic structure and selection signatures for color in 10 traditional Chinese yellow-feathered chicken breeds

2020 ◽  
Author(s):  
Xunhe Huang ◽  
Newton O. Otecko ◽  
Minsheng Peng ◽  
Zhuoxian Weng ◽  
Weina Li ◽  
...  
Keyword(s):  
Genetic Structure ◽  
Population Genomics ◽  
Biochemical Properties ◽  
Conservation Strategies ◽  
Potential Candidate ◽  
Solute Carrier Family ◽  
Indigenous Chicken ◽  
Genome Wide ◽  
Yellow Color ◽  
Solute Carrier

Abstract Background: Yellow-feathered chickens (YFCs) have a long history in China. They are well-known for the nutritional and commercial importance attributable to their yellow color phenotype. Currently, there is a huge paucity in knowledge of the genetic determinants responsible for phenotypic and biochemical properties of these iconic chickens. This study aimed to uncover the genetic structure and the molecular underpinnings of the YFCs trademark coloration. Results: The whole-genomes of 100 YFCs from 10 major traditional breeds and 10 Huaibei partridge chickens from China were re-sequenced. Comparative population genomics based on autosomal single nucleotide polymorphisms (SNPs) revealed three geographically based clusters among the YFCs. Compared to other Chinese indigenous chicken genomes incorporated from previous studies, a closer genetic proximity within YFC breeds than between YFC breeds and other chicken populations is evident. Through genome-wide scans for selective sweeps, we identified RALY heterogeneous nuclear ribonucleoprotein (RALY), leucine rich repeat containing G protein-coupled receptor 4 ( LGR4 ), solute carrier family 23 member 2 ( SLC23A2 ), and solute carrier family 2 member 14 ( SLC2A14 ), besides the classical beta-carotene dioxygenase 2 ( BCDO2 ), as major candidates pigment determining genes in the YFCs. Conclusion: We provide the first comprehensive genomic data of the YFCs. Our analyses show phylogeographical patterns among the YFCs and potential candidate genes giving rise to the yellow color trait of the YFCs. This study lays the foundation for further research on the genome-phenotype cross-talks that define important poultry traits and for formulating genetic breeding and conservation strategies for the YFCs.

Abstract 67: miR-19 Deficiency Impairs Cardiac Repolarization in Zebrafish

2015 ◽  
Vol 117 (suppl_1) ◽  
Author(s):  
Alexander Benz ◽  
Hugo A Katus ◽  
David Hassel
Keyword(s):  
Long Qt Syndrome ◽  
Heart Function ◽  
Cardiac Contractility ◽  
Potential Candidate ◽  
Long Qt ◽  
Vast Number ◽  
Small Noncoding Rnas ◽  
Potential Candidate Gene ◽  
Increased Sensitivity ◽  
Qt Syndrome

The most common outcome of heart failure (HF) is sudden cardiac death which results mostly from prolonged action potential duration (APD) and arrhythmias. During the pathogenesis and progression of HF, a vast number of signaling pathways are altered. microRNAs are small noncoding RNAs that post-transcriptionally finetune gene expression. Interestingly, several microRNAs are dysregulated during HF, suggesting a potential involvement in the development and progression of the disease. Here, we identified miR-19 as an important regulator of heart function. Zebrafish lacking miR-19 developed severe bradycardia and reduced cardiac contractility. While the mammalian genome encodes for two isoforms of miR-19, zebrafish express four members (19a-d). We found that the reduction of miR-19b specifically is sufficient to cause bradycardia and reduced cardiac contractility. Imaging of ventricular APs from whole hearts revealed that APD is significantly prolonged and repolarization is impaired in miR-19b deficient zebrafish. By qRT-PCR experiments we showed that the expression of several cardiac ion channels is altered. Moreover, miR-19b deficiency results in increased sensitivity to an AV-Block, which is a characteristic feature of long QT-Syndrome in zebrafish. In conclusion, we identified miR-19b as a novel and essential modulator of the electrical activity of the heart and establish miR-19b as a potential candidate gene causative for human long QT syndrome.

scholarly journals Clinical, Immunological, and Functional Characterization of Six Patients with Very High IgM Levels

2020 ◽  
Vol 9 (3) ◽  
pp. 818 ◽  
Author(s):  
Vera Gallo ◽  
Emilia Cirillo ◽  
Rosaria Prencipe ◽  
Alessio Lepore ◽  
Luigi Del Vecchio ◽  
...  
Keyword(s):  
B Cell ◽  
Somatic Hypermutation ◽  
Functional Characterization ◽  
Class Switch Recombination ◽  
Pathogenic Mutation ◽  
Potential Candidate ◽  
Class Switch ◽  
Potential Candidate Gene ◽  
Very High

Very high IgM levels represent the hallmark of hyper IgM (HIGM) syndromes, a group of primary immunodeficiencies (PIDs) characterized by susceptibility to infections and malignancies. Other PIDs not fulfilling the diagnostic criteria for HIGM syndromes can also be characterized by high IgM levels and susceptibility to malignancies. The aim of this study is to characterize clinical phenotype, immune impairment, and pathogenic mechanism in six patients with very high IgM levels in whom classical HIGM syndromes were ruled out. The immunological analysis included extended B-cell immunophenotyping, evaluation of class switch recombination and somatic hypermutation, and next generation sequencing (NGS). Recurrent or severe infections and chronic lung changes at the diagnosis were reported in five out of six and two out of six patients, respectively. Five out of six patients showed signs of lymphoproliferation and four patients developed malignancies. Four patients showed impaired B-cell homeostasis. Class switch recombination was functional in vivo in all patients. NGS revealed, in one case, a pathogenic mutation in PIK3R1. In a second case, the ITPKB gene, implicated in B- and T-cell development, survival, and activity was identified as a potential candidate gene. Independent of the genetic basis, very high IgM levels represent a risk factor for the development of recurrent infections leading to chronic lung changes, lymphoproliferation, and high risk of malignancies.

scholarly journals Genome-Wide Variation, Candidate Regions and Genes Associated With Fat Deposition and Tail Morphology in Ethiopian Indigenous Sheep

2019 ◽  
Vol 9 ◽  
Author(s):  
Abulgasim Ahbara ◽  
Hussain Bahbahani ◽  
Faisal Almathen ◽  
Mohammed Al Abri ◽  
Mukhtar Omar Agoub ◽  
...  
Keyword(s):  
Fat Deposition ◽  
Indigenous Sheep ◽  
Genome Wide ◽  
Candidate Regions

scholarly journals Systematic Analysis and Functional Validation of Citrus Pectin Acetylesterases (CsPAEs) Reveals that CsPAE2 Negatively Regulates Citrus Bacterial Canker Development

2020 ◽  
Vol 21 (24) ◽  
pp. 9429
Author(s):  
Qiang Li ◽  
Jia Fu ◽  
Xiujuan Qin ◽  
Wen Yang ◽  
Jingjing Qi ◽  
...  
Keyword(s):  
Susceptible Variety ◽  
Resistant Variety ◽  
Potential Candidate ◽  
Bacterial Canker ◽  
Citrus Pectin ◽  
Systematic Analysis ◽  
Canker Disease ◽  
Potential Candidate Gene ◽  
Citrus Bacterial Canker ◽  
Canker Development

The present study was designed to serve as a comprehensive analysis of Citrus sinensis (C. sinensis) pectin acetylesterases (CsPAEs), and to assess the roles of these PAEs involved in the development of citrus bacterial canker (CBC) caused by Xanthomonas citri subsp. citri (Xcc) infection. A total of six CsPAEs were identified in the genome of C. sinensis, with these genes being unevenly distributed across chromosomes 3, 6, and 9, and the unassembled scaffolds. A subset of CsPAEs were found to be involved in responses to Xcc infection. In particular, CsPAE2 was identified to be associated with such infections, as it was upregulated in CBC-susceptible variety Wanjincheng and inversely in CBC-resistant variety Calamondin. Transgenic citrus plants overexpressing CsPAE2 were found to be more susceptible to CBC, whereas the silencing of this gene was sufficient to confer CBC resistance. Together, these findings provide evolutionary insights into and functional information about the CsPAE family. This study also suggests that CsPAE2 is a potential candidate gene that negatively contributes to bacterial canker disease and can be used to breed CBC-resistant citrus plants.

scholarly journals Transcriptome analysis of adipose tissues from two fat-tailed sheep breeds reveals key genes involved in fat deposition

BMC Genomics ◽  
2018 ◽  
Vol 19 (1) ◽  
Author(s):  
Baojun Li ◽  
Liying Qiao ◽  
Lixia An ◽  
Weiwei Wang ◽  
Jianhua Liu ◽  
...  
Keyword(s):  
Transcriptome Analysis ◽  
Fat Deposition ◽  
Adipose Tissues ◽  
Sheep Breeds ◽  
Key Genes

scholarly journals Over-expression of poplar NAC15 gene enhances wood formation in transgenic tobacco

2020 ◽  
Vol 20 (1) ◽  
Author(s):  
Wenjing Yao ◽  
Dawei Zhang ◽  
Boru Zhou ◽  
Jianping Wang ◽  
Renhua Li ◽  
...  
Keyword(s):  
Transgenic Tobacco ◽  
Wood Formation ◽  
Potential Candidate ◽  
Rna Seq ◽  
Populus Simonii ◽  
Over Expression ◽  
Potential Candidate Gene ◽  
Relative Expression Level ◽  
Transgenic Lines ◽  
Highly Expressed Genes

Abstract Background NAC (NAM/ATAF/CUC) is one of the largest plant-specific transcription factor (TF) families known to play significant roles in wood formation. Acting as master gene regulators, a few NAC genes can activate secondary wall biosynthesis during wood formation in woody plants. Results In the present study, firstly, we screened 110 differentially expressed NAC genes in the leaves, stems, and roots of di-haploid Populus simonii×P. nigra by RNA-Seq. Then we identified a nucleus-targeted gene, NAC15 gene, which was one of the highly expressed genes in the stem among 110 NAC family members. Thirdly, we conducted expression pattern analysis of NAC15 gene, and observed NAC15 gene was most highly expressed in the xylem by RT-qPCR. Moreover, we transferred NAC15 gene into tobacco and obtained 12 transgenic lines overexpressing NAC15 gene (TLs). And the relative higher content of hemicellulose, cellulose and lignin was observed in the TLs compared to the control lines containing empty vector (CLs). It also showed darker staining in the culms of the TLs with phloroglucinol staining, compared to the CLs. Furthermore, the relative expression level of a few lignin- and cellulose-related genes was significantly higher in the TLs than that in the CLs. Conclusions The overall results indicated that NAC15 gene is highly expressed in the xylem of poplar and may be a potential candidate gene playing an important role in wood formation in transgenic tobacco.

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