不同生理阶段边鸡卵巢转录谱的构建及卵泡发育相关基因的分析

doi:10.11843/j.issn.0366-6964.2022.02.010

Abstract

Abstract: To dig out the genes related to the follicular development and reveal the genetic resorce for strong nesting, the transcriptome profiles of ovaries of Bian chickens at different physiological stages were analyzed. The transcriptome profiles of ovaries of Bian chickens at 70 d (stage of ovary development), 165 d (beginning of egg laying), 220 d (eggs laying at peak) and 330 d (nesting) were constructed, RSEM method was used to analyze the correlations of ovarian gene expression at different ages, basing on the differentially expressed genes (DEGs), GO and KEGG analysis, the candidate genes related to follicular development were screened and verified by quantitative real-time PCR. The analysis of transcriptome profiles showed that in total, there were 18 891 genes were identified among which 18 063 were known genes and 828 were unknown genes. Among the differentially expressed genes, 40 genes correlated with follicles development were screened, of which 35 genes were positively related to the number of developed follicle. The expression level of FDX1L in Bian chicken ovary at 70, 220, 165 and 330 d gradually decreased, and the expression level of NDRG4 in Bian chicken ovary at 70, 165, 220 and 330 d showed a decreasing trend with the increase of age; The expression levels of MC3R and PRLHR were higher in ovaries of Bian chicken at 70 and 330 d than those at 165 and 220 d; VIP was only expressed in Bian chicken ovary on 70, 165 and 220 d. The 11 randomly selected DEGs were verified by real-time fluorescent quantitative PCR that their relative expression were consistent with the transcriptional expression profile. Furthermore, GO function enrichment found that the DEGs were mainly concentrated in "biological processes", followed by "cell components", and finally "molecular functions"; KEGG analysis found that the DEGs are mainly concentrated in signal transduction, immune system and signal molecules, and interaction pathways. By analyzing gene expression profiles of Bian chicken ovary at different physiological stages, mining genes related to follicular development, and using GO function enrichment analysis and KEGG analysis, the functional classification and signaling pathway of differentially expressed genes was obtained. It provides the basis for revealing the molecular regulation of the related genes and their nesting properties of the Bian chicken follicle development.

Key words: Bian chicken, ovary, transcriptome, differentially expressed gene, follicular development, nesting

CLC Number:

S831.2

ZHANG Junzhen, LI Cai'e, LIU Bo, LI Jianhui, ZHANG Meng, LI Yali, CHANG Qiangqiang. Construction of Ovary Transcription Profile of Bian Chicken at Different Physiological Stages and Analysis of Genes Related to Follicular Development[J]. Acta Veterinaria et Zootechnica Sinica, 2022, 53(2): 423-435.

References 33

[1]	林欣.蛋鸡退化卵泡衰退的机制及其功能的研究[D].杭州:浙江大学,2018.LIN X.Degradation and functions of the regressed ovarian follicles in the laving chickens[D].Hangzhou:Zhejiang University,2018.(in Chinese)
[2]	江红霞,刘慧芬,马晓,等.转录组测序筛选克氏原螯虾卵巢发育、免疫和生长相关基因[J].水产学报,2021,45(3):396-414.JIANG H X,LIU H F,MA X,et al.Transcriptome analysis of Procambarus clarkii to screen genes related to ovary development,immunity and growth[J].Journal of Fisheries of China,2021,45(3):396-414.(in Chinese)
[3]	孟金柱,安清明,赵成刚,等.基于转录组测序筛选山羊卵泡发育相关上调基因[J].中国畜牧杂志,2020,56(8):190-195.MENG J Z,AN Q M,ZHAO C G,et al.Transcriptome sequencing screened the up-regulated genes related to follicle development in goats[J].Chinese Journal of Animal Science,2020,56(8):190-195.(in Chinese)
[4]	郝庆玲,景炅婕,朱芷葳,等.基于Illumina平台转录组测序筛选牛卵泡发育调控基因[J].湖南农业大学学报:自然科学版,2019,45(1):60-67.HAO Q L,JING J J,ZHU Z W,et al.Screening follicular development regulation genes in bovine using Illumina transcriptome sequencing[J].Journal of Hunan Agricultural University:Natural Sciences,2019,45(1):60-67.(in Chinese)
[5]	朱志明,陈红萍,林如龙,等.山麻鸭开产期和产蛋高峰期卵巢组织转录组分析[J].中国农业科学,2016,49(5):998-1007.ZHU Z M,CHEN H P,LIN R L,et al.Transcriptome analysis of ovary tissue in early laying period and egg laying peak Period of Shanma ducks[J].Scientia Agricultura Sinica,2016,49(5):998-1007.(in Chinese)
[6]	SHEN M M,WU P,LI T T,et al.Transcriptome analysis of circRNA and mRNA in theca cells during follicular development in chickens[J].Genes (Basel),2020,11(5):489.
[7]	董新龙,张向前,韩昆鹏,等.基于RNA-Seq技术的京海黄鸡卵巢组织转录本预测及新基因挖掘[J].中国畜牧兽医,2017,44(2):497-504.DONG X L,ZHANG X Q,HAN K P,et al.Prediction of novel transcripts and discovery of novel genes on RNA-Seq analysis of Jinghai Yellow chicken ovary[J].China Animal Husbandry & Veterinary Medicine,2017,44(2):497-504.(in Chinese)
[8]	PERTEA M,PERTEA G M,ANTONESCU C M,et al.StringTie enables improved reconstruction of a transcriptome from RNA-seq reads[J].Nat Biotechnol,2015,33(3):290-295.
[9]	MARONGIU M,DEIANA M,MARCIA L,et al.Novel action of FOXL2 as mediator of Col1a2 gene autoregulation[J].Dev Biol,2016,416(1):200-211.
[10]	KONG L,ZHANG Y,YE Z Q,et al.CPC:assess the protein-coding potential of transcripts using sequence features and support vector machine[J].Nucleic Acids Res,2007,35(S2):W345-W349.
[11]	LANGMEAD B,SALZBERG S L.Fast gapped-read alignment with Bowtie 2[J].Nat Methods,2012,9(4):357-359.
[12]	LI B,DEWEY C N.RSEM:accurate transcript quantification from RNA-Seq data with or without a reference genome[J].BMC Bioinformatics,2011,12(1):323.
[13]	AUDIC S,CLAVERIE J M.The significance of digital gene expression profiles[J].Genome Res,1997,7(10):986-995.
[14]	李元曦,夏应菊,徐璐,等.基于RNA-seq对猪瘟病毒感染宿主的转录组学研究进展[J].中国兽药杂志,2020,54(11):79-85.LI Y X,XIA Y J,XU L,et al.Research progress of transcriptome of classical swine fever virus after infection[J].Chinese Journal of Veterinary Drug,2020,54(11):79-85.(in Chinese)
[15]	朱志明,缪中纬,章琳俐,等.金定鸭卵巢组织转录组SNPs和可变剪接分析[J].中国家禽,2020,42(2):11-16.ZHU Z M,MIAO Z W,ZHANG L L,et al.Analysis on SNPs and alternative splicing of Jinding duck ovary with RNA-Seq[J].China Poultry,2020,42(2):11-16.(in Chinese)
[16]	韩昆鹏.高、低产蛋量京海黄鸡卵巢组织转录组学分析[D].扬州:扬州大学,2016.HAN K P.Transcriptomics analysis of ovaries of high and low egg production Jinghai Yellow chicken[D].Yangzhou:Yangzhou University,2016.(in Chinese)
[17]	SHI Y B,GHOSH M,KOVTUNOVYCH G,et al.Both human ferredoxins 1 and 2 and ferredoxin reductase are important for iron-sulfur cluster biogenesis[J].Biochim Biophys Acta Mol Cell Res,2012,1823(2):484-492.
[18]	SPIEGEL R,SAADA A,HALVARDSON J,et al.Deleterious mutation in FDX1L gene is associated with a novel mitochondrial muscle myopathy[J].Eur J Human Genet,2014,22(7):902-906.
[19]	AGOSTA C,LAUGIER J,GUYON L,et al.MiR-483-5p and miR-139-5p promote aggressiveness by targeting N-myc downstream-regulated gene family members in adrenocortical cancer[J].Int J Cancer,2018,143(4):944-957.
[20]	ZHANG Z X,SHE J J,YANG J Y,et al.NDRG4 in gastric cancer determines tumor cell proliferation and clinical outcome[J].Mol Carcinog,2018,57(6):762-771.
[21]	刘巍,贾朝阳,潘文婧,等.下调NDRG4表达对卵巢癌细胞增殖、凋亡的影响及机制[J].山东医药,2019,59(17):5-8.LIU W,JIA Z Y,PAN W J,et al.Effects of down-regulating NDRG4 expression on proliferation and apoptosis of ovarian cancer cells[J].Shandong Medical Journal,2019,59(17):5-8.(in Chinese)
[22]	曹雪娇,董丽娜,谭文华,等.NDRG4在卵巢癌中的表达[J].哈尔滨医科大学学报,2017,51(5):434-437.CAO X J,DONG L N,TAN W H,et al.Expression of NDRG4 in ovarian cancer[J].Journal of Harbin Medical University,2017,51(5):434-437.(in Chinese)
[23]	ZHU M F,ZHENG R,GUO Y W,et al.NDRG4 promotes myogenesis via Akt/CREB activation[J].Oncotarget,2017,8(60):101720-101734.
[24]	HONGO S,WATANABE T,TAKAHASHI K,et al.Ndrg4 enhances NGF-induced ERK activation uncoupled with Elk-1 activation[J].Cell Biochem,2006,98(1):185-193.
[25]	热依拉·普拉提.巴什拜羊PBDC1、MC3R、NF1和A-FABP基因多态性与其生长性状相关性研究[D].乌鲁木齐:新疆农业大学,2018.REYILA.P L T.Study on the correlation between PBDC1,MC3R,NF1 and A-FABP gene polymorphisms and growth traits of Bashbai Sheep[D].Urumqi:Xinjiang Agricultural University,2018.(in Chinese)
[26]	HOU L E,JI W Y,GU T T,et al.MiR-34c-5p promotes granulosa cells apoptosis by targeting Bcl2 in broody goose (Anser cygnoides)[J].Animal Biotechnol,2021,doi:10.1080/10495398.2021.1886943.
[27]	付晶,宁方勇,魏来,等.鹌鹑MC3R基因的SNPs及其与生长和屠体性状的相关研究[J].中国家禽,2011,33(20):13-17.FU J,NING F Y,WEI L,et al.Single nucleotide polymorphisms of quail melanocortin-3 receptor (MC3R) gene and its association analysis with growth and slaughter traits[J].China Poultry,2011,33(20):13-17.(in Chinese)
[28]	张心扬,霍明东,王守志,等.鸡MC3R基因多态性与体重和体组成性状的相关研究[J].中国家禽,2015,37(10):12-15.ZHANG X Y,HUO M D,WANG S Z,et al.Correlation analysis between polymorphism of MC3R gene and growth and body composition traits in chicken[J].China Poultry,2015,37(10):12-15.(in Chinese)
[29]	徐邢宾.利用CRISPR/Cas9系统构建MC3R基因敲除猪[D].秦皇岛:河北科技师范学院,2016.XU X B.Construction of MC3R knock-out pigs by CRISPR/Cas9 system[D].Qinhuangdao:Hebei Normal University of Science,2016.(in Chinese)
[30]	CHHAJLANI V.Distribution of cDNA for melanocortin receptor subtypes in human tissues[J].Biochem Mol Biol Int,1996,38(1):73-80.
[31]	NI X P,BUTLER A A,CONE R D,et al.Central receptors mediating the cardiovascular actions of melanocyte stimulating hormones[J].J Hypertens,2006,24(11):2239-2246.
[32]	李国辉,张学余,韩威,等.催乳素和神经肽Y基因及基因聚合对白耳鸡产蛋数的遗传效应[J].湖北农业科学,2010,49(5):1029-1032.LI G H,ZHANG X Y,HAN W,et al.Effect of single and pyramiding genotypes of PRL and NPY genes on baier chicken egg production[J].Hubei Agricultural Sciences,2010,49(5):1029-1032.(in Chinese)
[33]	HOSSEINPOUR L,NIKBIN S,HEDAYAT-EVRIGH N,et al.Association of polymorphisms of vasoactive intestinal peptide and its receptor with reproductive traits of turkey hens[J].South Afr J Animal Sci,2020,50(3):345-352.

Construction of Ovary Transcription Profile of Bian Chicken at Different Physiological Stages and Analysis of Genes Related to Follicular Development

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