De Novo Assembly and Comparative Transcriptome Profiling of <i>Anser anser</i> and <i>Anser cygnoides</i> Geese Species’ Embryonic Skin Feather Follicles
Geese feather production and the quality of downy feathers are additional economically important traits in the geese industry. However, little information is available about the molecular mechanisms fundamental to feather formation and the quality of feathers in geese. This study conducted de novo t...
Main Authors: | , , , , , , , , , , , , , |
---|---|
Format: | Article |
Language: | English |
Published: |
MDPI AG
2019-05-01
|
Series: | Genes |
Subjects: | |
Online Access: | https://www.mdpi.com/2073-4425/10/5/351 |
id |
doaj-25e1ef99fc824e1c8771a943a29c4a57 |
---|---|
record_format |
Article |
spelling |
doaj-25e1ef99fc824e1c8771a943a29c4a572020-11-25T01:36:38ZengMDPI AGGenes2073-44252019-05-0110535110.3390/genes10050351genes10050351De Novo Assembly and Comparative Transcriptome Profiling of <i>Anser anser</i> and <i>Anser cygnoides</i> Geese Species’ Embryonic Skin Feather FolliclesCornelius Tlotliso Sello0Chang Liu1Yongfeng Sun2Petunia Msuthwana3Jingtao Hu4Yujian Sui5Shaokang Chen6Yuxuan Zhou7Hongtao Lu8Chenguang Xu9Yue Sun10Jing Liu11Shengyi Li12Wei Yang13College of Animal Science and Technology, Jilin Agricultural University, Changchun 130118, ChinaCollege of Animal Science and Technology, Jilin Agricultural University, Changchun 130118, ChinaCollege of Animal Science and Technology, Jilin Agricultural University, Changchun 130118, ChinaCollege of Animal Science and Technology, Jilin Agricultural University, Changchun 130118, ChinaCollege of Animal Science and Technology, Jilin Agricultural University, Changchun 130118, ChinaCollege of Animal Science and Technology, Jilin Agricultural University, Changchun 130118, ChinaBeijing General Station of Animal Husbandry, Beijing 100107, ChinaCollege of Animal Science and Technology, Jilin Agricultural University, Changchun 130118, ChinaCollege of Animal Science and Technology, Jilin Agricultural University, Changchun 130118, ChinaCollege of Animal Science and Technology, Jilin Agricultural University, Changchun 130118, ChinaCollege of Animal Science and Technology, Jilin Agricultural University, Changchun 130118, ChinaCollege of Animal Science and Technology, Jilin Agricultural University, Changchun 130118, ChinaCollege of Animal Science and Technology, Jilin Agricultural University, Changchun 130118, ChinaCollege of Animal Science and Technology, Jilin Agricultural University, Changchun 130118, ChinaGeese feather production and the quality of downy feathers are additional economically important traits in the geese industry. However, little information is available about the molecular mechanisms fundamental to feather formation and the quality of feathers in geese. This study conducted de novo transcriptome sequencing analysis of two related geese species using the Illumina 4000 platform to determine the genes involved in embryonic skin feather follicle development. A total of 165,564,278 for <i>Anser anser</i> and 144,595,262 for <i>Anser cygnoides</i> clean reads were generated, which were further assembled into 77,134 unigenes with an average length of 906 base pairs in <i>Anser anser</i> and 66,041 unigenes with an average length of 922 base pairs in <i>Anser cygnoides.</i> To recognize the potential regulatory roles of differentially expressed genes (DEGs) during geese embryonic skin feather follicle development, the obtained unigenes were annotated to Gene Ontology (GO), Eukaryotic Orthologous Groups (KOG), and Kyoto Encyclopedia of Genes and Genomes (KEGG) for functional analysis. In both species, GO and KOG had shown similar distribution patterns during functional annotation except for KEGG, which showed significant variation in signaling enrichment. <i>Anser asnser</i> was significantly enriched in the calcium signaling pathway, whereas <i>Anser cygnoides</i> was significantly enriched with glycerolipid metabolism. Further analysis indicated that 14,227 gene families were conserved between the species, among which a total of 20,715 specific gene families were identified. Comparative RNA-Seq data analysis may reveal inclusive knowledge to assist in the identification of genetic regulators at a molecular level to improve feather quality production in geese and other poultry species.https://www.mdpi.com/2073-4425/10/5/351feather developmentgene expressionIllumina HiSeq 4000trinity software |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Cornelius Tlotliso Sello Chang Liu Yongfeng Sun Petunia Msuthwana Jingtao Hu Yujian Sui Shaokang Chen Yuxuan Zhou Hongtao Lu Chenguang Xu Yue Sun Jing Liu Shengyi Li Wei Yang |
spellingShingle |
Cornelius Tlotliso Sello Chang Liu Yongfeng Sun Petunia Msuthwana Jingtao Hu Yujian Sui Shaokang Chen Yuxuan Zhou Hongtao Lu Chenguang Xu Yue Sun Jing Liu Shengyi Li Wei Yang De Novo Assembly and Comparative Transcriptome Profiling of <i>Anser anser</i> and <i>Anser cygnoides</i> Geese Species’ Embryonic Skin Feather Follicles Genes feather development gene expression Illumina HiSeq 4000 trinity software |
author_facet |
Cornelius Tlotliso Sello Chang Liu Yongfeng Sun Petunia Msuthwana Jingtao Hu Yujian Sui Shaokang Chen Yuxuan Zhou Hongtao Lu Chenguang Xu Yue Sun Jing Liu Shengyi Li Wei Yang |
author_sort |
Cornelius Tlotliso Sello |
title |
De Novo Assembly and Comparative Transcriptome Profiling of <i>Anser anser</i> and <i>Anser cygnoides</i> Geese Species’ Embryonic Skin Feather Follicles |
title_short |
De Novo Assembly and Comparative Transcriptome Profiling of <i>Anser anser</i> and <i>Anser cygnoides</i> Geese Species’ Embryonic Skin Feather Follicles |
title_full |
De Novo Assembly and Comparative Transcriptome Profiling of <i>Anser anser</i> and <i>Anser cygnoides</i> Geese Species’ Embryonic Skin Feather Follicles |
title_fullStr |
De Novo Assembly and Comparative Transcriptome Profiling of <i>Anser anser</i> and <i>Anser cygnoides</i> Geese Species’ Embryonic Skin Feather Follicles |
title_full_unstemmed |
De Novo Assembly and Comparative Transcriptome Profiling of <i>Anser anser</i> and <i>Anser cygnoides</i> Geese Species’ Embryonic Skin Feather Follicles |
title_sort |
de novo assembly and comparative transcriptome profiling of <i>anser anser</i> and <i>anser cygnoides</i> geese species’ embryonic skin feather follicles |
publisher |
MDPI AG |
series |
Genes |
issn |
2073-4425 |
publishDate |
2019-05-01 |
description |
Geese feather production and the quality of downy feathers are additional economically important traits in the geese industry. However, little information is available about the molecular mechanisms fundamental to feather formation and the quality of feathers in geese. This study conducted de novo transcriptome sequencing analysis of two related geese species using the Illumina 4000 platform to determine the genes involved in embryonic skin feather follicle development. A total of 165,564,278 for <i>Anser anser</i> and 144,595,262 for <i>Anser cygnoides</i> clean reads were generated, which were further assembled into 77,134 unigenes with an average length of 906 base pairs in <i>Anser anser</i> and 66,041 unigenes with an average length of 922 base pairs in <i>Anser cygnoides.</i> To recognize the potential regulatory roles of differentially expressed genes (DEGs) during geese embryonic skin feather follicle development, the obtained unigenes were annotated to Gene Ontology (GO), Eukaryotic Orthologous Groups (KOG), and Kyoto Encyclopedia of Genes and Genomes (KEGG) for functional analysis. In both species, GO and KOG had shown similar distribution patterns during functional annotation except for KEGG, which showed significant variation in signaling enrichment. <i>Anser asnser</i> was significantly enriched in the calcium signaling pathway, whereas <i>Anser cygnoides</i> was significantly enriched with glycerolipid metabolism. Further analysis indicated that 14,227 gene families were conserved between the species, among which a total of 20,715 specific gene families were identified. Comparative RNA-Seq data analysis may reveal inclusive knowledge to assist in the identification of genetic regulators at a molecular level to improve feather quality production in geese and other poultry species. |
topic |
feather development gene expression Illumina HiSeq 4000 trinity software |
url |
https://www.mdpi.com/2073-4425/10/5/351 |
work_keys_str_mv |
AT corneliustlotlisosello denovoassemblyandcomparativetranscriptomeprofilingofianseranseriandiansercygnoidesigeesespeciesembryonicskinfeatherfollicles AT changliu denovoassemblyandcomparativetranscriptomeprofilingofianseranseriandiansercygnoidesigeesespeciesembryonicskinfeatherfollicles AT yongfengsun denovoassemblyandcomparativetranscriptomeprofilingofianseranseriandiansercygnoidesigeesespeciesembryonicskinfeatherfollicles AT petuniamsuthwana denovoassemblyandcomparativetranscriptomeprofilingofianseranseriandiansercygnoidesigeesespeciesembryonicskinfeatherfollicles AT jingtaohu denovoassemblyandcomparativetranscriptomeprofilingofianseranseriandiansercygnoidesigeesespeciesembryonicskinfeatherfollicles AT yujiansui denovoassemblyandcomparativetranscriptomeprofilingofianseranseriandiansercygnoidesigeesespeciesembryonicskinfeatherfollicles AT shaokangchen denovoassemblyandcomparativetranscriptomeprofilingofianseranseriandiansercygnoidesigeesespeciesembryonicskinfeatherfollicles AT yuxuanzhou denovoassemblyandcomparativetranscriptomeprofilingofianseranseriandiansercygnoidesigeesespeciesembryonicskinfeatherfollicles AT hongtaolu denovoassemblyandcomparativetranscriptomeprofilingofianseranseriandiansercygnoidesigeesespeciesembryonicskinfeatherfollicles AT chenguangxu denovoassemblyandcomparativetranscriptomeprofilingofianseranseriandiansercygnoidesigeesespeciesembryonicskinfeatherfollicles AT yuesun denovoassemblyandcomparativetranscriptomeprofilingofianseranseriandiansercygnoidesigeesespeciesembryonicskinfeatherfollicles AT jingliu denovoassemblyandcomparativetranscriptomeprofilingofianseranseriandiansercygnoidesigeesespeciesembryonicskinfeatherfollicles AT shengyili denovoassemblyandcomparativetranscriptomeprofilingofianseranseriandiansercygnoidesigeesespeciesembryonicskinfeatherfollicles AT weiyang denovoassemblyandcomparativetranscriptomeprofilingofianseranseriandiansercygnoidesigeesespeciesembryonicskinfeatherfollicles |
_version_ |
1725061905199923200 |