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goat transcriptome

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https://www.readbyqxmd.com/read/29690875/cross-species-inference-of-long-non-coding-rnas-greatly-expands-the-ruminant-transcriptome
#1
Stephen J Bush, Charity Muriuki, Mary E B McCulloch, Iseabail L Farquhar, Emily L Clark, David A Hume
BACKGROUND: mRNA-like long non-coding RNAs (lncRNAs) are a significant component of mammalian transcriptomes, although most are expressed only at low levels, with high tissue-specificity and/or at specific developmental stages. Thus, in many cases lncRNA detection by RNA-sequencing (RNA-seq) is compromised by stochastic sampling. To account for this and create a catalogue of ruminant lncRNAs, we compared de novo assembled lncRNAs derived from large RNA-seq datasets in transcriptional atlas projects for sheep and goats with previous lncRNAs assembled in cattle and human...
April 24, 2018: Genetics, Selection, Evolution: GSE
https://www.readbyqxmd.com/read/29563042/exploring-differentially-expressed-genes-related-to-metabolism-by-rna-seq-in-goat-liver-after-dexamethasone-treatment
#2
Qu Chen, Canfeng Hua, Liqiong Niu, Yali Geng, Liuping Cai, Shiyu Tao, Yingdong Ni, Ruqian Zhao
Chronic stress severely threatens the welfare and health of animals and humans. In order to study the effects of chronic stress on metabolism, de novo transcriptome sequencing was used to generate the expressed sequence tag dataset for the goat, using nextgeneration sequencing technology. For this study, consecutive dexamethasone (Dex) injection was used in 10 healthy male goats (body weight 25 ± 1.0 kg) to mimic chronic stress. Ten male goats were randomly assigned into two groups, one group was injected intramuscularly with the same volume of saline as control (Con) group, and another (Dex) group was injected intramuscularly with 0...
June 15, 2018: Gene
https://www.readbyqxmd.com/read/29471137/mucosal-and-systemic-responses-of-immunogenic-vaccines-candidates-against-enteric-escherichia-coli-infections-in-ruminants-a-review
#3
REVIEW
A Lawan, F F A Jesse, U H Idris, M N Odhah, M Arsalan, N A Muhammad, K R Bhutto, I D Peter, G A Abraham, A H Wahid, M L Mohd-Azmi, M Zamri-Saad
Innumerable Escherichia coli of animal origin are identified, which are of economic significance, likewise, cattle, sheep and goats are the carrier of enterohaemorrhagic E. coli, which are less pathogenic, and can spread to people by way of direct contact and through the contamination of foodstuff or portable drinking water, causing serious illness. The immunization of ruminants has been carried out for ages and is largely acknowledged as the most economical and maintainable process of monitoring E. coli infection in ruminants...
April 2018: Microbial Pathogenesis
https://www.readbyqxmd.com/read/29410805/transcriptomic-inspection-revealed-a-possible-pathway-regulating-the-formation-of-the-high-quality-brush-hair-in-chinese-haimen-goat-capra-hircus
#4
Dejun Ji, Bo Yang, Yongjun Li, Miaoying Cai, Wei Zhang, Guohu Cheng, Haiyan Guo
The high-quality brush hair, or Type III brush hair, is coarse hair but with a tip and little medulla, which uniquely grows in the cervical carina of Chinese Haimen goat ( Capra hircus ). To unveil the mechanism of the formation of Type III brush hair in Haimen goats, transcriptomic RNAseq technology was used for screening of differentially expressed genes (DEGs) in the skin samples of the Type III and the non-Type III hair goats, and these DEGs were analysed by KEGG pathway analysis. The results showed that a total of 295 DEGs were obtained, mainly from three main functional types: cellular component, molecular function and biological process...
January 2018: Royal Society Open Science
https://www.readbyqxmd.com/read/29320989/expression-of-vimentin-in-hair-follicle-growth-cycle-of-inner-mongolian-cashmere-goats
#5
Nai Rile, Zhihong Liu, Lixia Gao, Jingkai Qi, Meng Zhao, Yuchun Xie, Rui Su, Yanjun Zhang, Ruijun Wang, Jie Li, Hongmei Xiao, Jinquan Li
BACKGROUND: The growth of Inner Mongolian Cashmere goat skin hair follicle exhibits a periodic growth pattern. The hair growth cycle is distinguished as telogen, anagen, and catagen stages. The role of vimentin in the growth process of hair follicles is evident. To elucidate the mechanism underlying the vimentin activity in the growth cycle of hair follicles, transcriptome sequencing and liquid chromatography-tandem mass spectrometry were used to obtain the nucleic acid and amino acid sequences of VIIM gene and vimentin...
January 10, 2018: BMC Genomics
https://www.readbyqxmd.com/read/29295561/exploring-the-mechanisms-of-electroacupuncture-induced-analgesia-through-rna-sequencing-of-the-periaqueductal-gray
#6
Man-Li Hu, Hong-Mei Zhu, Qiu-Lin Zhang, Jing-Jing Liu, Yi Ding, Ju-Ming Zhong, Vitaly Vodyanoy, Ming-Xing Ding
Electroacupuncture (EA) can relieve various pains. However, its mechanism in terms of the transcriptome is still not well-known. To explore the full profile of EA-induced molecular modification in the central nerve system, three twins of goats were selected for a match-paired experiment: EA stimulation (60 Hz, 30 min) and none-EA (control). Goats in the EA group showed an increased ( p < 0.05) nociceptive threshold compared with the control goats. Experimental goats were sacrificed at 4 h of the experiment, and the periaqueductal grays were harvested for RNA sequencing...
December 25, 2017: International Journal of Molecular Sciences
https://www.readbyqxmd.com/read/29228005/rna-seq-reveals-transcriptome-changes-in-goats-following-myostatin-gene-knockout
#7
Lamei Wang, Bei Cai, Shiwei Zhou, Haijing Zhu, Lei Qu, Xiaolong Wang, Yulin Chen
Myostatin (MSTN) is a powerful negative regulator of skeletal muscle mass in mammalian species that is primarily expressed in skeletal muscles, and mutations of its encoding gene can result in the double-muscling trait. In this study, the CRISPR/Cas9 technique was used to edit MSTN in Shaanbei Cashmere goats and generate knockout animals. RNA sequencing was used to determine and compare the transcriptome profiles of the muscles from three wild-type (WT) goats, three fibroblast growth factor 5 (FGF5) knockout goats (FGF5+/- group) and three goats with disrupted expression of both the FGF5 and MSTN genes (FM+/- group)...
2017: PloS One
https://www.readbyqxmd.com/read/29164142/pathogenesis-molecular-genetics-and-genomics-of-mycobacterium-avium-subsp-paratuberculosis-the-etiologic-agent-of-johne-s-disease
#8
REVIEW
Govardhan Rathnaiah, Denise K Zinniel, John P Bannantine, Judith R Stabel, Yrjö T Gröhn, Michael T Collins, Raúl G Barletta
Mycobacterium avium subsp. paratuberculosis (MAP) is the etiologic agent of Johne's disease in ruminants causing chronic diarrhea, malnutrition, and muscular wasting. Neonates and young animals are infected primarily by the fecal-oral route. MAP attaches to, translocates via the intestinal mucosa, and is phagocytosed by macrophages. The ensuing host cellular immune response leads to granulomatous enteritis characterized by a thick and corrugated intestinal wall. We review various tissue culture systems, ileal loops, and mice, goats, and cattle used to study MAP pathogenesis...
2017: Frontiers in Veterinary Science
https://www.readbyqxmd.com/read/29149296/comparative-transcriptomics-of-5-high-altitude-vertebrates-and-their-low-altitude-relatives
#9
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 have examined high-altitude adaptation have 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...
December 1, 2017: GigaScience
https://www.readbyqxmd.com/read/29134700/comparative-analysis-of-ovarian-transcriptomes-between-prolific-and-non-prolific-goat-breeds-via-high-throughput-sequencing
#10
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...
April 2018: 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
#11
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
#12
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
#13
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...
January 2018: 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
#14
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 a natural mutant with dark skin over the 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 with deep RNA sequencing, quantitative PCR, 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...
December 1, 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
#15
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
#16
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
#17
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
#18
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
#19
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
#20
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: This study investigated 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...
March 2018: Asian-Australasian Journal of Animal Sciences
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