Differential evolutionary patterns and expression levels between sex-specific and somatic tissue-specific genes in peanut

Abstract The patterns of evolution and expression of tissue-specific genes are poorly understood beyond sex-specific genes. Accordingly, we identified 3,191 tissue-specific genes and 38,745 common genes using 22 RNA-seq datasets from cultivated peanut. The expression levels of tissue-specific genes...

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Autores principales:	Hui Song, Qingping Zhang, Pei Tian, Zhibiao Nan
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2017
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/eb35c1b1d7354970afde202ad90820b3
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spelling	oai:doaj.org-article:eb35c1b1d7354970afde202ad90820b32021-12-02T12:30:35ZDifferential evolutionary patterns and expression levels between sex-specific and somatic tissue-specific genes in peanut10.1038/s41598-017-09905-82045-2322https://doaj.org/article/eb35c1b1d7354970afde202ad90820b32017-08-01T00:00:00Zhttps://doi.org/10.1038/s41598-017-09905-8https://doaj.org/toc/2045-2322Abstract The patterns of evolution and expression of tissue-specific genes are poorly understood beyond sex-specific genes. Accordingly, we identified 3,191 tissue-specific genes and 38,745 common genes using 22 RNA-seq datasets from cultivated peanut. The expression levels of tissue-specific genes were significantly lower than those of common genes. Further, the expression levels of sex-specific genes were significantly higher than those of somatic tissue-specific genes. Among sex-specific genes, the expression levels of gynoecium-specific genes were significantly higher than those of androecium-specific genes. Function-specific genes were lacking among tissue-specific genes, and tissue-specific gene annotations overlapped among different tissues. Duplicate gene pairs were classified as homogeneous pairs expressed within the same tissue or heterogeneous pairs expressed in different tissues. Heterogeneous gene pairs evolved more rapidly than homogeneous gene pairs. In addition, somatic tissue-specific genes evolved faster than sex-specific genes. Molecular signatures of selection indicated that somatic tissue-specific genes have mainly experienced relaxed selection, while sex-specific genes have been under stronger selective constraint. Somatic tissue-specific genes had higher codon usage bias than sex-specific genes. These contrasting patterns between somatic tissue-specific and sex-specific genes provide new insights into the basic biology and evolution of peanut, an important crop.Hui SongQingping ZhangPei TianZhibiao NanNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 7, Iss 1, Pp 1-7 (2017)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Hui Song Qingping Zhang Pei Tian Zhibiao Nan Differential evolutionary patterns and expression levels between sex-specific and somatic tissue-specific genes in peanut
description	Abstract The patterns of evolution and expression of tissue-specific genes are poorly understood beyond sex-specific genes. Accordingly, we identified 3,191 tissue-specific genes and 38,745 common genes using 22 RNA-seq datasets from cultivated peanut. The expression levels of tissue-specific genes were significantly lower than those of common genes. Further, the expression levels of sex-specific genes were significantly higher than those of somatic tissue-specific genes. Among sex-specific genes, the expression levels of gynoecium-specific genes were significantly higher than those of androecium-specific genes. Function-specific genes were lacking among tissue-specific genes, and tissue-specific gene annotations overlapped among different tissues. Duplicate gene pairs were classified as homogeneous pairs expressed within the same tissue or heterogeneous pairs expressed in different tissues. Heterogeneous gene pairs evolved more rapidly than homogeneous gene pairs. In addition, somatic tissue-specific genes evolved faster than sex-specific genes. Molecular signatures of selection indicated that somatic tissue-specific genes have mainly experienced relaxed selection, while sex-specific genes have been under stronger selective constraint. Somatic tissue-specific genes had higher codon usage bias than sex-specific genes. These contrasting patterns between somatic tissue-specific and sex-specific genes provide new insights into the basic biology and evolution of peanut, an important crop.
format	article
author	Hui Song Qingping Zhang Pei Tian Zhibiao Nan
author_facet	Hui Song Qingping Zhang Pei Tian Zhibiao Nan
author_sort	Hui Song
title	Differential evolutionary patterns and expression levels between sex-specific and somatic tissue-specific genes in peanut
title_short	Differential evolutionary patterns and expression levels between sex-specific and somatic tissue-specific genes in peanut
title_full	Differential evolutionary patterns and expression levels between sex-specific and somatic tissue-specific genes in peanut
title_fullStr	Differential evolutionary patterns and expression levels between sex-specific and somatic tissue-specific genes in peanut
title_full_unstemmed	Differential evolutionary patterns and expression levels between sex-specific and somatic tissue-specific genes in peanut
title_sort	differential evolutionary patterns and expression levels between sex-specific and somatic tissue-specific genes in peanut
publisher	Nature Portfolio
publishDate	2017
url	https://doaj.org/article/eb35c1b1d7354970afde202ad90820b3
work_keys_str_mv	AT huisong differentialevolutionarypatternsandexpressionlevelsbetweensexspecificandsomatictissuespecificgenesinpeanut AT qingpingzhang differentialevolutionarypatternsandexpressionlevelsbetweensexspecificandsomatictissuespecificgenesinpeanut AT peitian differentialevolutionarypatternsandexpressionlevelsbetweensexspecificandsomatictissuespecificgenesinpeanut AT zhibiaonan differentialevolutionarypatternsandexpressionlevelsbetweensexspecificandsomatictissuespecificgenesinpeanut
_version_	1718394370335440896

Differential evolutionary patterns and expression levels between sex-specific and somatic tissue-specific genes in peanut

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