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goat transcriptome

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https://www.readbyqxmd.com/read/29149296/comparative-transcriptomics-of-five-high-altitude-vertebrates-and-their-low-altitude-relatives
#1
Qianzi Tang, Yiren Gu, Xuming Zhou, Long Jin, Jiuqiang Guan, Rui Liu, Jing Li, Kereng Long, Shilin Tian, Tiandong Che, Silu Hu, Yan Liang, Xuemei Yang, Xuan Tao, Zhijun Zhong, Guosong Wang, Xiaohui Chen, Diyan Li, Jideng Ma, Xun Wang, Miaomiao Mai, An'an Jiang, Xiaolin Luo, Xuebin Lv, Vadim N Gladyshev, Xuewei Li, Mingzhou Li
Background: Species living at high altitude are subject to strong selective pressures due to inhospitable environments (e.g., hypoxia, low temperature, high solar radiation, and lack of biological production), making these species valuable models for comparative analyses of local adaptation. Studies that examined high-altitude adaptation identified a vast array of rapidly evolving genes that characterize the dramatic phenotypic changes in high-altitude animals. However, how high-altitude environment shapes gene expression programs remains largely unknown...
November 15, 2017: GigaScience
https://www.readbyqxmd.com/read/29134700/comparative-analysis-of-ovarian-transcriptomes-between-prolific-and-non-prolific-goat-breeds-via-high-throughput-sequencing
#2
X-D Zi, J-Y Lu, H Zhou, L Ma, W Xia, X-R Xiong, D-L Lan, X-H Wu
To increase the current understanding of the gene expression in the pre-ovulatory ovary and identify the key genes involved in the regulation of ovulation rate, we compared the transcriptomes of ovaries from the prolific Jintang black goat (JTG) and the non-prolific Tibetan goat (TBG) during the follicular phase using the Illumina RNA-Seq method. Three ovarian libraries were constructed for each breed. On average, we obtained approximately 49.2 and 45.9 million reads for each individual ovary of TBGs and JTGs, respectively, of which 79...
November 14, 2017: Reproduction in Domestic Animals, Zuchthygiene
https://www.readbyqxmd.com/read/29122055/extruded-linseed-alone-or-in-combination-with-fish-oil-modifies-mammary-gene-expression-profiles-in-lactating-goats
#3
Y Faulconnier, L Bernard, C Boby, J Domagalski, Y Chilliard, C Leroux
Nutrition is a major factor that regulates ruminant milk components, particularly its fatty acid (FA) composition, which is an important determinant of milk nutritional quality. In the mammary gland, milk component biosynthesis involves a large number of genes under nutritional regulation that are not well understood. Thus, the objective of the present study was to evaluate the effects of extruded linseeds (EL) alone or in combination with fish oil (ELFO) on goat mammary gene expression. In total, 14 goats were fed one of the following three diets: a natural grassland hay basal diet (CTRL) alone, CTRL supplemented with 530 g/day of EL, or 340 g/day of EL plus 39 g/day of fish oil (ELFO)...
November 10, 2017: Animal: An International Journal of Animal Bioscience
https://www.readbyqxmd.com/read/29044192/skin-transcriptome-reveals-the-intrinsic-molecular-mechanisms-underlying-hair-follicle-cycling-in-cashmere-goats-under-natural-and-shortened-photoperiod-conditions
#4
Min Yang, Shen Song, Kunzhe Dong, XiaoFei Chen, Xuexue Liu, Marhaba Rouzi, Qianjun Zhao, Xiaohong He, Yabin Pu, Weijun Guan, Yuehui Ma, Lin Jiang
The growth of cashmere exhibits a seasonal pattern arising from photoperiod change. However, the underlying molecular mechanism remains unclear. We profiled the skin transcriptome of six goats at seven time points during hair follicle cycling via RNA-seq. The six goats comprised three goats exposed to a natural photoperiod and three exposed to a shortened photoperiod. During hair cycle transition, 1713 genes showed differential expression, and 332 genes showed a pattern of periodic expression. Moreover, a short photoperiod induced the hair follicle to enter anagen early, and 246 genes overlapped with the periodic genes...
October 18, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28993898/dynamic-transcriptomic-analysis-in-hircine-longissimus-dorsi-muscle-from-fetal-to-neonatal-development-stages
#5
Siyuan Zhan, Wei Zhao, Tianzeng Song, Yao Dong, Jiazhong Guo, Jiaxue Cao, Tao Zhong, Linjie Wang, Li Li, Hongping Zhang
Muscle growth and development from fetal to neonatal stages consist of a series of delicately regulated and orchestrated changes in expression of genes. In this study, we performed whole transcriptome profiling based on RNA-Seq of caprine longissimus dorsi muscle tissue obtained from prenatal stages (days 45, 60, and 105 of gestation) and neonatal stage (the 3-day-old newborn) to identify genes that are differentially expressed and investigate their temporal expression profiles. A total of 3276 differentially expressed genes (DEGs) were identified (Q value < 0...
October 9, 2017: Functional & Integrative Genomics
https://www.readbyqxmd.com/read/28972038/comparative-transcriptome-and-histological-analyses-provide-insights-into-the-prenatal-skin-pigmentation-in-goat-capra-hircus
#6
Hangxing Ren, Gaofu Wang, Jing Jiang, Jie Li, Lin Fu, Liangjia Liu, Nianfu Li, Jinhong Zhao, Xiaoyan Sun, Li Zhang, Haiyan Zhang, Peng Zhou
The Youzhou dark goat is the natural mutant characterizing the dark skin of whole body including the visible mucous membranes. In the present study, we characterized 100-day-old fetal skin at the histomorphological and transcriptomic levels in dark-skinned (Youzhou Dark goat) and white-skinned (Yudong White goat) goats using deep RNA-sequencing, qPCR, and histological methods. Histological analysis indicated that there were marked differences in both melanin distribution and epidermal ultrastructure between the hyperpigmented and normal skin in two breeds of goat...
September 29, 2017: Physiological Genomics
https://www.readbyqxmd.com/read/28927467/associations-among-dietary-non-fiber-carbohydrate-ruminal-microbiota-and-epithelium-g-protein-coupled-receptor-and-histone-deacetylase-regulations-in-goats
#7
Hong Shen, Zhongyan Lu, Zhihui Xu, Zhan Chen, Zanming Shen
BACKGROUND: Diet-derived short-chain fatty acids (SCFAs) in the rumen have broad effects on the health and growth of ruminants. The microbe-G-protein-coupled receptor (GPR) and microbe-histone deacetylase (HDAC) axes might be the major pathway mediating these effects. Here, an integrated approach of transcriptome sequencing and 16S rRNA gene sequencing was applied to investigate the synergetic responses of rumen epithelium and rumen microbiota to the increased intake of dietary non-fiber carbohydrate (NFC) from 15 to 30% in the goat model...
September 19, 2017: Microbiome
https://www.readbyqxmd.com/read/28866083/the-developmental-transcriptome-landscape-of-receptive-endometrium-during-embryo-implantation-in-dairy-goats
#8
Lei Zhang, XiaoRui Liu, JunZe Liu, Li Ma, ZhanQin Zhou, YuXuan Song, BinYun Cao
Under natural conditions, some embryos cannot implant successfully because of the dysfunction of receptive endometrium (RE). Thus, it is imperative for us to study the molecular mechanisms involved in the formation of the RE from pre-receptive endometrium (PE). In this study, the endometrium from gestational day 5 (D5, PE) and gestational day 15 (D15, RE) dairy goats were selected to systematically analyze the transcriptome using strand-specific Ribo-Zero RNA-Seq, >120 million high-quality paired-end reads were generated and 47,616 transcripts were identified in the endometrium of dairy goats...
October 30, 2017: Gene
https://www.readbyqxmd.com/read/28800357/identification-of-differentially-expressed-genes-through-rna-sequencing-in-goats-capra-hircus-at-different-postnatal-stages
#9
Yaqiu Lin, Jiangjiang Zhu, Yong Wang, Qian Li, Sen Lin
Intramuscular fat (IMF) content and fatty acid composition of longissimus dorsi muscle (LM) change with growth, which partially determines the flavor and nutritional value of goat (Capra hircus) meat. However, unlike cattle, little information is available on the transcriptome-wide changes during different postnatal stages in small ruminants, especially goats. In this study, the sequencing reads of goat LM tissues collected from kid, youth, and adult period were mapped to the goat genome. Results showed that out of total 24 689 Unigenes, 20 435 Unigenes were annotated...
2017: PloS One
https://www.readbyqxmd.com/read/28766153/molecular-cloing-and-bioinformatics-analysis-of-lactate-dehydrogenase-from-taenia-multiceps
#10
Cheng Guo, Yu Wang, Xing Huang, Ning Wang, Ming Yan, Ran He, Xiaobin Gu, Yue Xie, Weimin Lai, Bo Jing, Xuerong Peng, Guangyou Yang
Coenurus cerebralis, the larval stage (metacestode or coenurus) of Taenia multiceps, parasitizes sheep, goats, and other ruminants and causes coenurosis. In this study, we isolated and characterized complementary DNAs that encode lactate dehydrogenase A (Tm-LDHA) and B (Tm-LDHB) from the transcriptome of T. multiceps and expressed recombinant Tm-LDHB (rTm-LDHB) in Escherichia coli. Bioinformatic analysis showed that both Tm-LDH genes (LDHA and LDHB) contain a 996-bp open reading frame and encode a protein of 331 amino acids...
October 2017: Parasitology Research
https://www.readbyqxmd.com/read/28757165/an-efficient-platform-for-astrocyte-differentiation-from-human-induced-pluripotent-stem-cells
#11
Julia Tcw, Minghui Wang, Anna A Pimenova, Kathryn R Bowles, Brigham J Hartley, Emre Lacin, Saima I Machlovi, Rawan Abdelaal, Celeste M Karch, Hemali Phatnani, Paul A Slesinger, Bin Zhang, Alison M Goate, Kristen J Brennand
Growing evidence implicates the importance of glia, particularly astrocytes, in neurological and psychiatric diseases. Here, we describe a rapid and robust method for the differentiation of highly pure populations of replicative astrocytes from human induced pluripotent stem cells (hiPSCs), via a neural progenitor cell (NPC) intermediate. We evaluated this protocol across 42 NPC lines (derived from 30 individuals). Transcriptomic analysis demonstrated that hiPSC-astrocytes from four individuals are highly similar to primary human fetal astrocytes and characteristic of a non-reactive state...
August 8, 2017: Stem Cell Reports
https://www.readbyqxmd.com/read/28728371/expression-of-fox-related-genes-in-the-skin-follicles-of-inner-mongolia-cashmere-goat
#12
Wenjing Han, Xiaoyan Li, Lele Wang, Honghao Wang, Kun Yang, Zhixin Wang, Ruijun Wang, Rui Su, Zhihong Liu, Yanhong Zhao, Yanjun Zhang, Jinquan Li
Objective: The aim of this study was to investigate the expression of genes in cashmere goats at different periods of their fetal development. Methods: Bioinformatics analysis was used to evaluate data obtained by transcriptome sequencing of fetus skin samples collected from Inner Mongolia cashmere goats on days 45, 55, and 65 of fetal age. Results: We found that FoxN1, FoxE1, and FoxI3 genes of the Fox gene family were probably involved in the growth and development of the follicle and the formation of hair, which is consistent with previous findings...
June 27, 2017: Asian-Australasian Journal of Animal Sciences
https://www.readbyqxmd.com/read/28694795/modulation-of-host-mirnas-transcriptome-in-lung-and-spleen-of-peste-des-petits-ruminants-virus-infected-sheep-and-goats
#13
Aruna Pandey, Amit R Sahu, Sajad A Wani, Shikha Saxena, Sonam Kanchan, Vaishali Sah, Kaushal K Rajak, Alok Khanduri, Aditya P Sahoo, Ashok K Tiwari, Bina Mishra, D Muthuchelvan, Bishnu P Mishra, Raj K Singh, Ravi K Gandham
Peste des petits ruminants (PPR) is one of the highly contagious viral disease, characterized by fever, sore mouth, conjunctivitis, gastroenteritis, and pneumonia, primarily affecting sheep and goats. Reports suggested variable host response in goats and sheep and this host response vis-a-vis the expression of microRNAs (miRNAs) has not been investigated. Here, miRNAs were sequenced and proteomics data were generated to identify the role of differentially expressed miRNA (DEmiRNA) in PPR virus (PPRV) infected lung and spleen tissues of sheep and goats...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28666525/untangling-genetic-risk-for-alzheimer-s-disease
#14
REVIEW
Anna A Pimenova, Towfique Raj, Alison M Goate
Alzheimer's disease (AD) is a genetically heterogeneous neurodegenerative disorder caused by fully penetrant single gene mutations in a minority of cases, while the majority of cases are sporadic or show modest familial clustering. These cases are of late onset and likely result from the interaction of many genes and the environment. More than 30 loci have been implicated in AD by a combination of linkage, genome-wide association, and whole genome/exome sequencing. We have learned from these studies that perturbations in endolysosomal, lipid metabolism, and immune response pathways substantially contribute to sporadic AD pathogenesis...
May 22, 2017: Biological Psychiatry
https://www.readbyqxmd.com/read/28651013/loss-of-prion-protein-induces-a-primed-state-of-type-i-interferon-responsive-genes
#15
Giulia Malachin, Malin R Reiten, Øyvind Salvesen, Håvard Aanes, Jorke H Kamstra, Kerstin Skovgaard, Peter M H Heegaard, Cecilie Ersdal, Arild Espenes, Michael A Tranulis, Maren K Bakkebø
The cellular prion protein (PrPC) has been extensively studied because of its pivotal role in prion diseases; however, its functions remain incompletely understood. A unique line of goats has been identified that carries a nonsense mutation that abolishes synthesis of PrPC. In these animals, the PrP-encoding mRNA is rapidly degraded. Goats without PrPC are valuable in re-addressing loss-of-function phenotypes observed in Prnp knockout mice. As PrPC has been ascribed various roles in immune cells, we analyzed transcriptomic responses to loss of PrPC in peripheral blood mononuclear cells (PBMCs) from normal goat kids (n = 8, PRNP+/+) and goat kids without PrPC (n = 8, PRNPTer/Ter) by mRNA sequencing...
2017: PloS One
https://www.readbyqxmd.com/read/28645321/genome-wide-analysis-of-dna-methylation-in-hypothalamus-and-ovary-of-capra-hircus
#16
Stefano Frattini, Emanuele Capra, Barbara Lazzari, Stephanie D McKay, Beatrice Coizet, Andrea Talenti, Debora Groppetti, Pietro Riccaboni, Alessandro Pecile, Stefania Chessa, Bianca Castiglioni, John L Williams, Giulio Pagnacco, Alessandra Stella, Paola Crepaldi
BACKGROUND: DNA methylation is a frequently studied epigenetic modification due to its role in regulating gene expression and hence in biological processes and in determining phenotypic plasticity in organisms. Rudimentary DNA methylation patterns for some livestock species are publically available: among these, goat methylome deserves to be further explored. RESULTS: Genome-wide DNA methylation maps of the hypothalamus and ovary from Saanen goats were generated using Methyl-CpG binding domain protein sequencing (MBD-seq)...
June 23, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28532450/lps-induced-systemic-inflammation-reveals-an-immunomodulatory-role-for-the-prion-protein-at-the-blood-brain-interface
#17
Ø Salvesen, M R Reiten, A Espenes, M K Bakkebø, M A Tranulis, C Ersdal
BACKGROUND: The cellular prion protein (PrP(C)) is an evolutionary conserved protein abundantly expressed not only in the central nervous system but also peripherally including the immune system. A line of Norwegian dairy goats naturally devoid of PrP(C) (PRNP (Ter/Ter)) provides a novel model for studying PrP(C) physiology. METHODS: In order to explore putative roles for PrP(C) in acute inflammatory responses, we performed a lipopolysaccharide (LPS, Escherichia coli O26:B6) challenge of 16 goats (8 PRNP (+/+) and 8 PRNP (Ter/Ter)) and included 10 saline-treated controls (5 of each PRNP genotype)...
May 22, 2017: Journal of Neuroinflammation
https://www.readbyqxmd.com/read/28301674/single-cell-transcriptome-profiling-revealed-differences-in-gene-expression-during-oocyte-maturation-in-haimen-white-goats
#18
X Y Yin, G H Cheng, H Y Guo, Q Wang, Y J Li, H Zhang
Juvenile in vitro embryo transfer is an important animal reproductive technology that can shorten the generation interval of livestock, explore the reproductive potential of dams with excellent genetic traits, accelerate genetic progress and production efficiency of the herd, and provide a wealth of genetic resources for livestock breeding. However, oocytes from kids do not develop as well as those from female goats during in vitro maturation. To identify differences during different stages of oocyte maturation, we used single cell transcriptome sequencing to compare gene expression in mature oocytes from kids and female goats...
March 15, 2017: Genetics and Molecular Research: GMR
https://www.readbyqxmd.com/read/28017736/comparative-and-temporal-transcriptome-analysis-of-peste-des-petits-ruminants-virus-infected-goat-peripheral-blood-mononuclear-cells
#19
Siddappa Manjunath, Bishnu Prasad Mishra, Bina Mishra, Aditya Prasad Sahoo, Ashok K Tiwari, Kaushal Kishore Rajak, D Muthuchelvan, Shikha Saxena, Lakshman Santra, Amit Ranjan Sahu, Sajad Ahmad Wani, R P Singh, Y P Singh, Aruna Pandey, Sonam Kanchan, R K Singh, Gandham Ravi Kumar, Sarath Chandra Janga
Peste des petits ruminanats virus (PPRV), a morbillivirus causes an acute, highly contagious disease - peste des petits ruminants (PPR), affecting goats and sheep. Sungri/96 vaccine strain is widely used for mass vaccination programs in India against PPR and is considered the most potent vaccine providing long-term immunity. However, occurrence of outbreaks due to emerging PPR viruses may be a challenge. In this study, the temporal dynamics of immune response in goat peripheral blood mononuclear cells (PBMCs) infected with Sungri/96 vaccine virus was investigated by transcriptome analysis...
February 2, 2017: Virus Research
https://www.readbyqxmd.com/read/28003963/transcriptome-analysis-reveals-common-differential-and-global-gene-expression-profiles-in-bluetongue-virus-serotype-16-btv-16-infected-peripheral-blood-mononuclear-cells-pbmcs-in-sheep-and-goats
#20
Anjali Singh, Minakshi Prasad, Bina Mishra, Siddappa Manjunath, Amit Ranjan Sahu, G Bhuvana Priya, Sajad Ahmad Wani, Aditya Prasad Sahoo, Amit Kumar, Shweta Balodi, Anupama Deora, Shikha Saxena, Ravi Kumar Gandham
Bluetongue is an economically important infectious, arthropod borne viral disease of domestic and wild ruminants, caused by Bluetongue virus (BTV). Sheep are considered the most susceptible hosts, while cattle, buffalo and goats serve as reservoirs. The viral pathogenesis of BTV resulting in presence or absence of clinical disease among different hosts is not clearly understood. In the present study, transcriptome of sheep and goats peripheral blood mononuclear cells infected with BTV-16 was explored. The differentially expressed genes (DEGs) identified were found to be significantly enriched for immune system processes - NFκB signaling, MAPK signaling, Ras signaling, NOD signaling, RIG signaling, TNF signaling, TLR signaling, JAK-STAT signaling and VEGF signaling pathways...
March 2017: Genomics Data
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