基于转录组测序研究调控黄羽肉鸡干毛性状关键基因和信号通路

doi:10.3864/j.issn.0578-1752.2024.01.014

中国农业科学 ›› 2024, Vol. 57 ›› Issue (1): 204-215.doi: 10.3864/j.issn.0578-1752.2024.01.014

基于转录组测序研究调控黄羽肉鸡干毛性状关键基因和信号通路

姬改革¹(), 陈智武²(), 单艳菊¹, 刘一帆¹, 屠云洁¹, 邹剑敏¹, 章明¹, 巨晓军¹, 束婧婷¹(), 张海涛³, 唐燕飞⁴, 蒋华莲⁴

¹ 江苏省家禽科学研究所/江苏省家禽遗传育种重点实验室，江苏扬州 225125
² 广西金陵农牧集团有限公司，南宁 530000
³ 江苏立华牧业股份有限公司，江苏常州 213168
⁴ 广西富凤农牧集团有限公司，南宁 530024

收稿日期:2023-05-09 接受日期:2023-10-31 出版日期:2024-01-01 发布日期:2024-01-10
通信作者:
束婧婷，E-mail：shujingting@163.com
联系方式: 姬改革，E-mail：jigaige@126.com。陈智武，E-mail：ubtech@163.com。姬改革与陈智武为同等贡献者。
基金资助:
江苏省自然科学基金(BK20210955); 江苏省种业振兴揭榜挂帅项目(JBGS〔2021〕107); 江苏现代农业（肉鸡）产业技术体系(JATS[2022]399); 江苏省农业重大新品种创制项目(PZCZ201728); 现代农业产业技术体系建设专项资金(CARS-41)

Study of Key Genes and Signaling Pathways Regulating Dry Feather Traits in Yellow-Feathered Broiler Chickens Based on Transcriptome Analysis

JI GaiGe¹(), CHEN ZhiWu²(), SHAN YanJu¹, LIU YiFan¹, TU YunJie¹, ZOU JianMin¹, ZHANG Ming¹, JU XiaoJun¹, SHU JingTing¹(), ZHANG HaiTao³, TANG YanFei⁴, JIANG HuaLian⁴

¹ Key Laboratory of Poultry Genetics and Breeding of Jiangsu Province/Jiangsu Institute of Poultry Sciences, Yangzhou 225125, Jiangsu
² Guangxi Jinling Agriculture and Animal Husbandry Group Co., Ltd., Nanning 530000
³ Jiangsu Lihua Animal Husbandry Stock Co., Ltd., Changzhou 213168, Jiangsu
⁴ Guangxi Fufeng Farm Group Co., Ltd., Nanning 530024

Received:2023-05-09 Accepted:2023-10-31 Published:2024-01-01 Online:2024-01-10

摘要/Abstract

摘要：

【目的】通过比较干毛和未干毛羽毛毛囊的形态学和基因表达差异，挖掘调控黄羽肉鸡羽毛干毛性状的重要候选基因和信号通路。【方法】分别采集背部未干毛和干毛羽毛皮肤组织样本各3个，运用组织切片技术，比较干毛和未干毛羽毛毛囊形态学差异；运用RNA-seq技术，比较两组样本之间的差异表达基因（differentially expressed genes，DEGs），并对其进行功能富集分析和蛋白互作网络构建；采用荧光定量PCR技术（RT-qPCR）对测序结果准确性进行验证。【结果】证实未干毛羽毛的毛囊处于生长期，已干毛的羽毛毛囊处于静止期。以未干毛毛囊（生长期）皮肤样本为对照，在干毛毛囊（静止期）皮肤样本中发现了942个DEGs(|fold-change|>2和P<0.05)，其中384个基因表达下调，558个基因表达上调。Go功能分析显示细胞分裂、周期调控等相关生物过程被显著富集(P<0.05)。KEGG分析发现，MAPK、TGF-β、p53及DNA复制等相关信号通路被显著富集(P<0.05)。构建差异蛋白相互作用（PPI）网络，通过CytoHubba分析获得6个hub基因，分别为CDK1、MAD2L1、BUB1、CCNB2、PLK1和BUB1B。GSEA富集分析筛选到紧密连接、胰岛素、MAPK、TGF-β和细胞周期等信号通路与鸡羽毛毛囊生长周期显著关联（|NES|>1, FDR<0.25）。RT-qPCR结果显示8个DEGs表达趋势与RNA-seq结果基本一致。【结论】鸡羽毛的干毛性状与毛囊周期发育相关，MAPK和TGF-β等信号通路可能通过调控细胞周期相关基因的表达在羽毛生长发育中发挥重要作用；结果为进一步深入了解黄羽肉鸡羽毛干毛性状分子调控机制提供了基础资料。

关键词: 鸡, 干毛, 毛囊, RNA-seq, 基因, 信号通路

Abstract:

【Objective】 The study aimed to identify important candidate genes and signaling pathways associated with dry feather traits by comparing the morphological and gene expression differences between the feather follicles of dry and undried feathers. 【Method】 Three samples of skin tissue were selected from each of the undried and dried feathers. The histological examinations were used to compare the morphological differences between the feather follicles of dried and undried feathers. RNA-seq technology was employed to compare the differentially expressed genes (DEGs) between the two groups of skin samples. The accuracy of transcriptome results was validated by using the fluorescent quantitative PCR technique (RT-qPCR). 【Result】 By histological H.E staining, it was confirmed that the feather follicles of the undried feathers were in the growth phase, while the feather follicles of the dried feathers were in the resting phase. The feather follicle skin samples at the growth stage were used as controls, 942 DEGs were identified in resting feather follicle samples (|fold-change|>2 and P<0.05), including 384 significantly down-regulated DEGs and 558 upregulated DEGs. Gene ontology (Go) analysis suggested that the DEGs were significantly enriched in cell division, cycle regulation, and other related biological processes. Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway results showed that the DEGs were related to MAPK, TGF-β, p53, and cell cycle-related signaling pathways. Protein-protein interaction (PPI) network was constructed and six hub genes were obtained by CytoHubba analysis, including CDK1, MAD2L1, BUB1, CCNB2, PLK1, and BUB1B. Gene Set Enrichment Analysis (GSEA) results indicated that the signaling pathways related to the tight junction, insulin, MAPK, TGF-β, and cell cycle-related pathways were significantly associated with the growth cycle of chicken feather follicles. The expression patterns of 8 DEGs detected by RT-qPCR were consistent with the RNA-seq results. 【Conclusion】 In summary, the dry feather traits of chickens were related to the development of feather follicle cycles. Signaling pathways such as MAPK and TGF-β might play important roles in feather growth and development by regulating the expression of cell cycle-related genes. The study provided clues for understanding the molecular regulatory mechanisms for dry feather traits in yellow-feathered broiler chickens.

Key words: chicken, dry feather, feather follicle, RNA-seq, gene, signaling pathway

姬改革, 陈智武, 单艳菊, 刘一帆, 屠云洁, 邹剑敏, 章明, 巨晓军, 束婧婷, 张海涛, 唐燕飞, 蒋华莲. 基于转录组测序研究调控黄羽肉鸡干毛性状关键基因和信号通路[J]. 中国农业科学, 2024, 57(1): 204-215.

JI GaiGe, CHEN ZhiWu, SHAN YanJu, LIU YiFan, TU YunJie, ZOU JianMin, ZHANG Ming, JU XiaoJun, SHU JingTing, ZHANG HaiTao, TANG YanFei, JIANG HuaLian. Study of Key Genes and Signaling Pathways Regulating Dry Feather Traits in Yellow-Feathered Broiler Chickens Based on Transcriptome Analysis[J]. Scientia Agricultura Sinica, 2024, 57(1): 204-215.

0
/ / 推荐

导出引用管理器 EndNote|Reference Manager|ProCite|BibTeX|RefWorks

链接本文: https://www.chinaagrisci.com/CN/10.3864/j.issn.0578-1752.2024.01.014

https://www.chinaagrisci.com/CN/Y2024/V57/I1/204

图/表 11

表1

图1

图2

表2

图3

图4

图5

表3

图6

图7

图8

参考文献 46

[1]	辛翔飞, 郑麦青, 文杰, 王济民. 2021年我国肉鸡产业形势分析、未来展望与对策建议. 中国畜牧杂志, 2022, 58(3): 222-226.
	XIN X F, ZHENG M Q, WEN J, WANG J M. Situation analysis, future prospect and countermeasures of China’s broiler industry in 2021. Chinese Journal of Animal Science, 2022, 58(3): 222-226. (in Chinese)
[2]	张德祥, 黄军. 土鸡羽毛成熟度的选育效果分析//中国家禽科学研究进展——第十四次全国家禽科学学术讨论会论文集. 哈尔滨, 2009: 339-342.
	ZHANG D X, HUANG J. Analysis of the effect of selection for feather maturity in indigenous chickens//Advance in Poultry Science in China-Proceedings of the 14th National Poultry Science Symposium. Harbin, 2009: 339-342. (in Chinese)
[3]	李培周. 鸡羽毛不同成熟度初级毛囊组织学观察及其与VEGF、VEGFR-2基因的相关性研究[D]. 湛江: 广东海洋大学, 2013.
	LI P Z. Histological observation of the primary follicle in different maturity of feathers and associated with VEGF gene and VEGFR-2 gene in chicken[D]. Zhanjiang: Guangdong Ocean University, 2013. (in Chinese)
[4]	ALIBARDI L. Transmission electron microscopic and immuno- histochemical observations of resting follicles of feathers in chicken show massive cell degeneration. Anatomical Science International, 2018, 93(4): 548-558. doi: 10.1007/s12565-018-0449-7
[5]	CHEN C C, PLIKUS M V, TANG P C, WIDELITZ R B, CHUONG C M. The modulatable stem cell niche: Tissue interactions during hair and feather follicle regeneration. Journal of Molecular Biology, 2016, 428(7): 1423-1440. doi: 10.1016/j.jmb.2015.07.009
[6]	LIN C M, JIANG T X, WIDELITZ R B, CHUONG C M. Molecular signaling in feather morphogenesis. Current Opinion in Cell Biology, 2006, 18(6): 730-741. doi: 10.1016/j.ceb.2006.10.009
[7]	CHU Q Q, CAI L Y, FU Y, CHEN X, YAN Z P, LIN X, ZHOU G X, HAN H, WIDELITZ R B, CHUONG C M, WU W, YUE Z C. Dkk2/Frzb in the dermal papillae regulates feather regeneration. Developmental Biology, 2014, 387(2): 167-178. doi: 10.1016/j.ydbio.2014.01.010 pmid: 24463139
[8]	LIN X, GAO Q X, ZHU L Y, ZHOU G X, NI S W, HAN H, YUE Z C. Long non-coding RNAs regulate Wnt signaling during feather regeneration. Development, 2018, 145(21): dev162388.
[9]	NG C S, CHEN C K, FAN W L, WU P, WU S M, CHEN J J, LAI Y T, MAO C T, LU M Y J, CHEN D R, LIN Z S, YANG K J, SHA Y A, TU T C, CHEN C F, CHUONG C M, LI W H. Transcriptomic analyses of regenerating adult feathers in chicken. BMC Genomics, 2015, 16(1): 1-16. doi: 10.1186/1471-2164-16-1
[10]	CHEN C F, FOLEY J, TANG P C, LI A, JIANG T X, WU P, WIDELITZ R B, CHUONG C M. Development, regeneration, and evolution of feathers. Annual Review of Animal Biosciences, 2015, 3: 169-195. doi: 10.1146/animal.2015.3.issue-1
[11]	CHEN M J, XIE W Y, JIANG S G, WANG X Q, YAN H C, GAO C Q. Molecular signaling and nutritional regulation in the context of poultry feather growth and regeneration. Frontiers in Physiology, 2019, 10: 1609. doi: 10.3389/fphys.2019.01609
[12]	GUO Q X, JIANG Y, WANG Z X, BI Y L, CHEN G H, BAI H, CHANG G B. Genome-wide analysis identifies candidate genes encoding feather color in ducks. Genes, 2022, 13(7): 1249. doi: 10.3390/genes13071249
[13]	DOMYAN E T, SHAPIRO M D. Pigeonetics takes flight: evolution, development, and genetics of intraspecific variation. Developmental Biology, 2017, 427(2): 241-250. doi: S0012-1606(16)30600-5 pmid: 27847323
[14]	JI G G, ZHANG M, LIU Y F, SHAN Y J, TU Y J, JU X J, ZOU J M, SHU J T, WU J F, XIE J F. A gene co-expression network analysis of the candidate genes and molecular pathways associated with feather follicle traits of chicken skin. Journal of Animal Breeding and Genetics, 2021, 138(1): 122-134. doi: 10.1111/jbg.v138.1
[15]	TRAPNELL C, PACHTER L, SALZBERG S L. TopHat: Discovering splice junctions with RNA-Seq. Bioinformatics, 2009, 25(9): 1105-1111. doi: 10.1093/bioinformatics/btp120 pmid: 19289445
[16]	FOISSAC S, SAMMETH M. ASTALAVISTA: Dynamic and flexible analysis of alternative splicing events in custom gene datasets. Nucleic Acids Research, 2007, 35(suppl_2): W297-W299.
[17]	YU G C, WANG L G, HAN Y Y, HE Q Y. clusterProfiler: An R package for comparing biological themes among gene clusters. Omics, 2012, 16(5): 284-287. doi: 10.1089/omi.2011.0118 pmid: 22455463
[18]	CHIN C H, CHEN S H, WU H H, HO C W, KO M T, LIN C Y. cytoHubba: Identifying hub objects and sub-networks from complex interactome. BMC Systems Biology, 2014, 8(Suppl 4): S11.
[19]	LIN S J, WIDELIZ R B, YUE Z C, LI A, WU X S, JIANG T X, WU P, CHUONG C M. Feather regeneration as a model for organogenesis. Development, Growth & Differentiation, 2013, 55(1): 139-148.
[20]	WANG E C E, HIGGINS C A. Immune cell regulation of the hair cycle. Experimental Dermatology, 2020, 29(3): 322-333. doi: 10.1111/exd.14070 pmid: 31903650
[21]	TAN S W, LI P Z, LI H, YU H, ZHANG Z F, ZENG Z, HUANG D C. Genetic effects of vascular endothelial growth factor and its receptor 2 on feather maturity in three chicken breeds. British Poultry Science, 2019, 60(2): 109-114. doi: 10.1080/00071668.2018.1564244 pmid: 30602288
[22]	ZHANG H, ZHANG X, LI X, MENG W B, BAI Z T, RUI S Z, WANG Z F, ZHOU W C, JIN X D. Effect of CCNB₁ silencing on cell cycle, senescence, and apoptosis through the p53 signaling pathway in pancreatic cancer. Journal of Cellular Physiology, 2018, 234(1): 619-631. doi: 10.1002/jcp.v234.1
[23]	KOYUNCU D, SHARMA U, GOKA E T, LIPPMAN M E. Spindle assembly checkpoint gene BUB1B is essential in breast cancer cell survival. Breast Cancer Research and Treatment, 2021, 185(2): 331-341. doi: 10.1007/s10549-020-05962-2
[24]	ILIAKI S, BEYAERT R, AFONINA I S. Polo-like kinase 1 (PLK1) signaling in cancer and beyond. Biochemical Pharmacology, 2021, 193: 114747. doi: 10.1016/j.bcp.2021.114747
[25]	CHEN Q F, ZHANG M, PAN X, YUAN X Y, ZHOU L L, YAN L, ZENG L H, XU J F, YANG B, ZHANG L, HUANG J, LU W G, FUKAGAWA T, WANG F W, YAN H Y. Bub1 and CENP-U redundantly recruit Plk1 to stabilize kinetochore-microtubule attachments and ensure accurate chromosome segregation. Cell Reports, 2021, 36(12): 109740. doi: 10.1016/j.celrep.2021.109740
[26]	HANEKE K, SCHOTT J, LINDNER D, HOLLENSEN A K, DAMGAARD C K, MONGIS C, KNOP M, PALM W, RUGGIERI A, STOECKLIN G. CDK1 couples proliferation with protein synthesis. The Journal of Cell Biology, 2020, 219(3): e201906147.
[27]	LIAO H W, JI F, YING S M. CDK1: Beyond cell cycle regulation. Aging, 2017, 9(12): 2465-2466. doi: 10.18632/aging.v9i12
[28]	WU P, JIANG T X, LEI M X, CHEN C K, HSIEH LI S M, WIDELITZ R B, CHUONG C M. Cyclic growth of dermal papilla and regeneration of follicular mesenchymal components during feather cycling. Development, 2021, 148(18): dev198671.
[29]	MANCHADO E, GUILLAMOT M, MALUMBRES M. Killing cells by targeting mitosis. Cell Death and Differentiation, 2012, 19(3): 369-377. doi: 10.1038/cdd.2011.197 pmid: 22223105
[30]	ZHOU H L, WANG L, HUANG J X, JIANG M H, ZHANG X Y, ZHANG L Y, WANG Y M, JIANG Z F, ZHANG Z J. High EGFR_1 inside-out activated inflammation-induced motility through SLC2A1- CCNB₂-HMMR-KIF11-NUSAP1-PRC1-UBE2C. Journal of Cancer, 2015, 6(6): 519-524. doi: 10.7150/jca.11404
[31]	MAO P, BAO G, WANG Y C, DU C W, YU X, GUO X Y, LI R C, WANG M D. PDZ-binding kinase-dependent transcriptional regulation of CCNB₂ promotes tumorigenesis and radio-resistance in glioblastoma. Translational Oncology, 2020, 13(2): 287-294. doi: 10.1016/j.tranon.2019.09.011
[32]	WU T, ZHANG X L, HUANG X H, YANG Y Q, HUA X X. Regulation of cyclin B2 expression and cell cycle G2/m transition by menin. The Journal of Biological Chemistry, 2010, 285(24): 18291-18300. doi: 10.1074/jbc.M110.106575
[33]	陈兴勇, 谢珊珊, 周丽, 姜润深, 耿照玉. 皖西白鹅换羽前后基因表达谱差异分析. 畜牧兽医学报, 2013, 44(7): 1030-1036.
	CHEN X Y, XIE S S, ZHOU L, JIANG R S, GENG Z Y. Identification of differentially expressed genes in skin of Wanxi-white goose during regeneration of downy feather. Chinese Journal of Animal and Veterinary Sciences, 2013, 44(7): 1030-1036. (in Chinese)
[34]	RISHIKAYSH P, DEV K, DIAZ D, QURESHI W M S, FILIP S, MOKRY J. Signaling involved in hair follicle morphogenesis and development. International Journal of Molecular Sciences, 2014, 15(1): 1647-1670. doi: 10.3390/ijms15011647 pmid: 24451143
[35]	CALVO-SÁNCHEZ M I, FERNÁNDEZ-MARTOS S, CARRASCO E, MORENO-BUENO G, BERNABÉU C, QUINTANILLA M, ESPADA J. A role for the Tgf-β/Bmp co-receptor Endoglin in the molecular oscillator that regulates the hair follicle cycle. Journal of Molecular Cell Biology, 2019, 11(1): 39-52. doi: 10.1093/jmcb/mjy051
[36]	ZHANG Y J, WU K J, WANG L L, WANG Z Y, HAN W J, CHEN D, WEI Y X, SU R, WANG R J, LIU Z H, ZHAO Y H, WANG Z X, ZHAN L L, ZHANG Y, LI J Q. Comparative study on seasonal hair follicle cycling by analysis of the transcriptomes from Cashmere and milk goats. Genomics, 2020, 112(1): 332-345. doi: S0888-7543(18)30576-7 pmid: 30779940
[37]	屠云洁, 姬改革, 章明, 刘一帆, 巨晓军, 单艳菊, 邹剑敏, 李华, 陈智武, 束婧婷. 鸡Wnt3a的SNPs筛选及其与皮肤毛囊密度性状关联分析. 中国农业科学, 2022, 55(23): 4769-4780. doi: 10.3864/j.issn.0578-1752.2022.23.016
	TU Y J, JI G G, ZHANG M, LIU Y F, JU X J, SHAN Y J, ZOU J M, LI H, CHEN Z W, SHU J T. Screening of Wnt3a SNPs and its association analysis with skin feather follicle density traits in chicken. Scientia Agricultura Sinica, 2022, 55(23): 4769-4780. (in Chinese)
[38]	YUE Z C, JIANG T X, WIDELITZ R B, CHUONG C M. Wnt3a gradient converts radial to bilateral feather symmetry via topological arrangement of epithelia. Proceedings of the National Academy of Sciences of the United States of America, 2006, 103(4): 951-955.
[39]	SONG Y P, LIU C, ZHOU Y X, LIN G Y, XU C G, MSUTHWANA P, WANG S H, MA J Y, ZHUANG F M, FU X O, WANG Y D, LIU T Y, LIU Q Y, WANG J B, SUI Y J, SUN Y F. Regulation of feather follicle development and Msx2 gene SNP degradation in Hungarian white goose. BMC Genomics, 2022, 23(1): 821. doi: 10.1186/s12864-022-09060-z pmid: 36510127
[40]	BAO P J, LUO J Y, LIU Y B, CHU M, REN Q M, GUO X, TANG B L, DING X Z, QIU Q, PAN H P, WANG K, YAN P. The seasonal development dynamics of the yak hair cycle transcriptome. BMC Genomics, 2020, 21(1): 355. doi: 10.1186/s12864-020-6725-7 pmid: 32393236
[41]	FANG G J, JIA X Z, LI H, TAN S W, NIE Q H, YU H, YANG Y. Characterization of microRNA and mRNA expression profiles in skin tissue between early-feathering and late-feathering chickens. BMC Genomics, 2018, 19(1): 399. doi: 10.1186/s12864-018-4773-z pmid: 29801437
[42]	CHEN X Y, GE K, WANG M, ZHANG C, GENG Z Y. Integrative analysis of the Pekin duck (Anas anas) microRNAome during feather follicle development. BMC Developmental Biology, 2017, 17(1): 12. doi: 10.1186/s12861-017-0153-1 pmid: 28728543
[43]	AKILLI ÖZTÜRK Ö, PAKULA H, CHMIELOWIEC J, QI J J, STEIN S, LAN L X, SASAKI Y, RAJEWSKY K, BIRCHMEIER W. Gab1 and mapk signaling are essential in the hair cycle and hair follicle stem cell quiescence. Cell Reports, 2015, 13(3): 561-572. doi: S2211-1247(15)01026-8 pmid: 26456821
[44]	SU R, GONG G, ZHANG L T, YAN X C, WANG F H, ZHANG L, QIAO X, LI X K, LI J Q. Screening the key genes of hair follicle growth cycle in Inner Mongolian Cashmere goat based on RNA sequencing. Archives Animal Breeding, 2020, 63(1): 155-164. doi: 10.5194/aab-63-155-2020 pmid: 32490151
[45]	冯云奎, 王健, 马金亮, 张柳明, 李拥军. miR-31-5p对山羊毛囊干细胞增殖和凋亡的影响. 中国农业科学, 2021, 54(23): 5132-5143. doi: 10.3864/j.issn.0578-1752.2021.23.017
	FENG Y K, WANG J, MA J L, ZHANG L M, LI Y J. Effects of miR-31-5p on the proliferation and apoptosis of hair follicle stem cells in goat. Scientia Agricultura Sinica, 2021, 54(23): 5132-5143. (in Chinese) doi: 10.3864/j.issn.0578-1752.2021.23.017
[46]	LIU M M, GOLDMAN G, MACDOUGALL M, CHEN S. BMP signaling pathway in dentin development and diseases. Cells, 2022, 11(14): 2216. doi: 10.3390/cells11142216

基因 Gene symbol	序列号 Accession number	引物序列 Primer sequence (5′→3′)	产物长度 Product length (bp)
β-actin	NM_205518.2	F: GCTGAACTCCATCTTGGTTCCC R: TGCTTCTAGGGTCACTCGCA	150
BUB1	NM_001012870.1	F: GCTGAACTCCATCTTGGTTCCC R: TGCTTCTAGGGTCACTCGCA	112
BIRC5	NM_001012319.1	F:CTGGATAAAAAGCGGACCAA R: AACCTAAGGGCCCATGTTCT	246
CDK1	NM_205314.1	F:GGAACGCATGTCCAAAACTT R: GCAGGCAGGCAAAGATAAAG	236
NEK2	NM_001031050.2	F:ATGTCTTCCTGGATGGCAAG R: TCTGCCAACTCCTTCTGGTT	241
CDC6	XM_040691823.1	F:GTGTCCTCTCGGAGGTGTTT R: AGGCACTCTGTCTGGTCCAC	214
ANXA1	NM_206906.1	F:AAAAACTCCACCTGGCAATG R: CCACATAAAGCGACCAGGAT	193
BCL2	NM_205339.2	F: TGACACCTCGATCTCACAGG R: CATGCAACACACTGGGATTC	247
EDA2R	NM_001083360.1	F: ACCCTCATCAACCGCATCCA R: GCCTTGCGGTAAAACCCTGG	89
FZD4	NM_204099.1	F:AATGTCACCAAGATGCCCAACC R:AGACCGAACAAAGGAAGAACTGGA	130

样品 Sample	原始序列 Raw reads	有效序列 Clean reads	Q30 (%)	GC (%)	比对率 Mapped on reference	未比对率 Unmapped	唯一位置比对 Uniquely mapped
H1-1	40968048	38142462	92.33	48.605	36255024 (95.05%)	1887438 (4.95%)	35196169 (92.28%)
H1-2	46296028	43781388	93.07	49.900	41547151 (94.9%)	2234237 (5.1%)	40274977 (91.99%)
H1-3	48737026	45301826	92.01	48.995	42668140 (94.19%)	2633686 (5.81%)	41786822 (92.24%)
H2-1	46250350	43867410	93.33	49.985	41559772 (94.74%)	2307638 (5.26%)	40597907 (92.55%)
H2-2	43917200	40983494	92.28	49.945	38739383 (94.52%)	2244111 (5.48%)	37804671 (92.24%)
H2-3	42372910	39985456	93.17	49.750	38040749 (95.14%)	1944707 (4.86%)	36991013 (92.51%)

基因 Gene	MCC	基因 Gene	Degree	基因 Gene	MNC	基因 Gene	EPC
CDK1	5.11E+19	CDK1	56	CDK1	55	APITD1	85.564
BUB1	5.11E+19	PLK1	46	PLK1	46	AURKA	85.564
PLK1	5.11E+19	CCNB2	44	CCNB2	43	CDK1	85.564
CCNB2	5.11E+19	CENPE	43	CENPE	43	TPX2	85.564
NDC80	5.11E+19	BUB1	41	BUB1	41	BIRC5	85.564
CENPE	5.11E+19	NDC80	41	NDC80	41	MAD2L1	85.564
BUB1B	5.11E+19	BUB1B	37	BUB1B	37	BUB1	85.564
MAD2L1	5.11E+19	MAD2L1	34	KIF11	34	CCNB2	85.564
CENPF	5.11E+19	KIF11	34	MAD2L1	33	PLK1	85.564
INCENP	5.11E+19	AURKA	32	AURKA	31	BUB1B	85.564

基于转录组测序研究调控黄羽肉鸡干毛性状关键基因和信号通路

Study of Key Genes and Signaling Pathways Regulating Dry Feather Traits in Yellow-Feathered Broiler Chickens Based on Transcriptome Analysis

RichHTML

PDF

赞

可视化

摘要/Abstract

引用本文

使用本文

图/表 11

参考文献 46

相关文章 15

Metrics

本文评价

推荐阅读 0

[1]	陈妞, 余成敏, 崔百明, 任彩霞, 杨丽颖, 董钰, 刘琳, 郑银英. 解淀粉欧文氏菌噬菌体Kuerle的分离、基因组测定及其裂解功能分析[J]. 中国农业科学, 2024, 57(2): 295-305.
[2]	周警卫, 叶博伟, 张朋飞, 张宇庆, 郝敏, 尹毓若, 袁婵, 李志康, 李顺达, 夏先春, 何中虎, 张宏军, 兰彩霞. 国内外153份小麦种质条锈病抗性鉴定与评价[J]. 中国农业科学, 2024, 57(1): 18-33.
[3]	刘志勇, 张怀志, 白斌, 李俊, 黄林, 徐智斌, 陈永兴, 刘旭, 曹廷杰, 李淼淼, 陆平, 吴秋红, 董玲丽, 韩玉林, 殷贵鸿, 胡卫国, 王西成, 赵虹, 闫素红, 杨兆生, 畅志坚, 王涛, 杨武云, 刘登才, 李洪杰, 杜久元. 中国小麦抗条锈病基因育种利用现状与策略[J]. 中国农业科学, 2024, 57(1): 34-51.
[4]	白斌, 张怀志, 杜久元, 张晓洋, 何瑞, 伍玲, 张哲, 张耀辉, 曹世勤, 刘志勇. 西北条锈菌源区冬小麦育种抗条锈病基因的利用现状与策略[J]. 中国农业科学, 2024, 57(1): 4-17.
[5]	李子萌, 袁婵, 张宇庆, 任妍, 刘鹏鹏, 严珊珊, 袭梦涵, 穆培源, 兰彩霞. 普通小麦Arableu#1白粉病成株抗性遗传解析[J]. 中国农业科学, 2024, 57(1): 52-64.
[6]	谭力治, 赵毅强. 全基因组关联分析中混合模型的原理、优化与应用[J]. 中国农业科学, 2023, 56(9): 1617-1632.
[7]	巨晓军, 章明, 单艳菊, 姬改革, 屠云洁, 刘一帆, 邹剑敏, 束婧婷. 鸡肉品质分析及关键风味物质和基因的筛选[J]. 中国农业科学, 2023, 56(9): 1813-1826.
[8]	李俊, 单露英, 肖芳, 李允静, 高鸿飞, 翟杉杉, 吴刚, 张秀杰, 武玉花. 转基因玉米MON87427梯度含量基体标准物质的研制[J]. 中国农业科学, 2023, 56(8): 1444-1455.
[9]	王兆昊, 郭兴茹, 张乐欢, 何永睿, 陈善春, 姚利晓. csi-miR399响应柑橘溃疡病菌侵染的表达模式及其抗病性分析[J]. 中国农业科学, 2023, 56(8): 1484-1493.
[10]	江东, 王旭, 李仁静, 赵晓东, 戴祥生, 柳正葳. 基于GBS技术开展柚类资源群体遗传评价并发掘酸含量相关基因[J]. 中国农业科学, 2023, 56(8): 1547-1560.
[11]	王慧玲, 闫爱玲, 王晓玥, 刘振华, 任建成, 徐海英, 孙磊. 葡萄果粒质量相关性状全基因组关联分析[J]. 中国农业科学, 2023, 56(8): 1561-1573.
[12]	林雨浓, 王泽昭, 陈燕, 朱波, 高雪, 张路培, 高会江, 徐凌洋, 蔡文涛, 李英豪, 李俊雅, 高树新. 不同筛选方法的低密度SNP集合填充准确性比较[J]. 中国农业科学, 2023, 56(8): 1585-1593.
[13]	肖涛, 李辉, 罗韦, 叶涛, 余欢, 陈友波, 石钰仕, 赵德鹏, 吴芸. 基于转录组测序筛选鸡蛋绿壳性状相关基因[J]. 中国农业科学, 2023, 56(8): 1594-1605.
[14]	谷闻东, 刘春娟, 李邦, 刘畅, 周宇飞. 外源色氨酸对低氮胁迫下高粱苗期叶片碳氮平衡和衰老特性的影响[J]. 中国农业科学, 2023, 56(7): 1295-1310.
[15]	邵红扬, 孟香, 张涛, 陈敏. 响应槲皮素诱导的美国白蛾P450基因及CYP6ZB2功能分析[J]. 中国农业科学, 2023, 56(7): 1322-1332.