Comparative Genome-wide Analysis and Expression Profiling of Histone Acetyltransferase (HAT) Gene Family in Response to Hormonal Applications, Metal and Abiotic Stresses in Cotton
Post-translational modifications are involved in regulating diverse developmental processes. Histone acetyltransferases (HATs) play vital roles in the regulation of chromation structure and activate the gene transcription implicated in various cellular processes. However, HATs in cotton, as well as...
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MDPI AG
2019-10-01
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| Series: | International Journal of Molecular Sciences |
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| Online Access: | https://www.mdpi.com/1422-0067/20/21/5311 |
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| author | Muhammad Imran Sarfraz Shafiq Muhammad Ansar Farooq Muhammad Kashif Naeem Emilie Widemann Ali Bakhsh Kevin B. Jensen Richard R.-C. Wang |
| author_facet | Muhammad Imran Sarfraz Shafiq Muhammad Ansar Farooq Muhammad Kashif Naeem Emilie Widemann Ali Bakhsh Kevin B. Jensen Richard R.-C. Wang |
| author_sort | Muhammad Imran |
| collection | DOAJ |
| description | Post-translational modifications are involved in regulating diverse developmental processes. Histone acetyltransferases (HATs) play vital roles in the regulation of chromation structure and activate the gene transcription implicated in various cellular processes. However, HATs in cotton, as well as their regulation in response to developmental and environmental cues, remain unidentified. In this study, 9 HATs were identified from <i>Gossypium raimondi</i> and <i>Gossypium arboretum</i>, while 18 HATs were identified from <i>Gossypium hirsutum</i>. Based on their amino acid sequences, <i>Gossypium</i> HATs were divided into three groups: CPB, GNAT, and TAF<sub>II</sub>250. Almost all the HATs within each subgroup share similar gene structure and conserved motifs. <i>Gossypium</i> HATs are unevenly distributed on the chromosomes, and duplication analysis suggests that <i>Gossypium</i> HATs are under strong purifying selection. Gene expression analysis showed that <i>Gossypium</i> HATs were differentially expressed in various vegetative tissues and at different stages of fiber development. Furthermore, all the HATs were differentially regulated in response to various stresses (salt, drought, cold, heavy metal and DNA damage) and hormones (abscisic acid (ABA) and auxin (NAA)). Finally, co-localization of HAT genes with reported quantitative trait loci (QTL) of fiber development were reported. Altogether, these results highlight the functional diversification of HATs in cotton growth and fiber development, as well as in response to different environmental cues. This study enhances our understanding of function of histone acetylation in cotton growth, fiber development, and stress adaptation, which will eventually lead to the long-term improvement of stress tolerance and fiber quality in cotton. |
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| last_indexed | 2024-04-12T00:45:10Z |
| publishDate | 2019-10-01 |
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| series | International Journal of Molecular Sciences |
| spelling | doaj.art-a45cc6fd89434db7aff974c67eabf2582022-12-22T03:54:53ZengMDPI AGInternational Journal of Molecular Sciences1422-00672019-10-012021531110.3390/ijms20215311ijms20215311Comparative Genome-wide Analysis and Expression Profiling of Histone Acetyltransferase (HAT) Gene Family in Response to Hormonal Applications, Metal and Abiotic Stresses in CottonMuhammad Imran0Sarfraz Shafiq1Muhammad Ansar Farooq2Muhammad Kashif Naeem3Emilie Widemann4Ali Bakhsh5Kevin B. Jensen6Richard R.-C. Wang7School of Life Sciences, Tsinghua University, Beijing 100084, ChinaSchool of Life Sciences, Tsinghua University, Beijing 100084, ChinaInstitute of Soil & Environmental Sciences, University of Agriculture, Faisalabad 38000, PakistanState Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, ChinaDepartment of Biology, University of Western Ontario, 1151 Richmond St, London, ON N6A5B8 CanadaDepartment of Plant breeding and Genetics, Ghazi University, Dera Ghazi Khan 32200, PakistanForage & Range Research, United States Department of Agriculture, Agricultural Research Service, Logan, UT 84322, USAForage & Range Research, United States Department of Agriculture, Agricultural Research Service, Logan, UT 84322, USAPost-translational modifications are involved in regulating diverse developmental processes. Histone acetyltransferases (HATs) play vital roles in the regulation of chromation structure and activate the gene transcription implicated in various cellular processes. However, HATs in cotton, as well as their regulation in response to developmental and environmental cues, remain unidentified. In this study, 9 HATs were identified from <i>Gossypium raimondi</i> and <i>Gossypium arboretum</i>, while 18 HATs were identified from <i>Gossypium hirsutum</i>. Based on their amino acid sequences, <i>Gossypium</i> HATs were divided into three groups: CPB, GNAT, and TAF<sub>II</sub>250. Almost all the HATs within each subgroup share similar gene structure and conserved motifs. <i>Gossypium</i> HATs are unevenly distributed on the chromosomes, and duplication analysis suggests that <i>Gossypium</i> HATs are under strong purifying selection. Gene expression analysis showed that <i>Gossypium</i> HATs were differentially expressed in various vegetative tissues and at different stages of fiber development. Furthermore, all the HATs were differentially regulated in response to various stresses (salt, drought, cold, heavy metal and DNA damage) and hormones (abscisic acid (ABA) and auxin (NAA)). Finally, co-localization of HAT genes with reported quantitative trait loci (QTL) of fiber development were reported. Altogether, these results highlight the functional diversification of HATs in cotton growth and fiber development, as well as in response to different environmental cues. This study enhances our understanding of function of histone acetylation in cotton growth, fiber development, and stress adaptation, which will eventually lead to the long-term improvement of stress tolerance and fiber quality in cotton.https://www.mdpi.com/1422-0067/20/21/5311histone acetyltransferasesgenome-wide analysisfiberabiotic stress expression profilescotton |
| spellingShingle | Muhammad Imran Sarfraz Shafiq Muhammad Ansar Farooq Muhammad Kashif Naeem Emilie Widemann Ali Bakhsh Kevin B. Jensen Richard R.-C. Wang Comparative Genome-wide Analysis and Expression Profiling of Histone Acetyltransferase (HAT) Gene Family in Response to Hormonal Applications, Metal and Abiotic Stresses in Cotton International Journal of Molecular Sciences histone acetyltransferases genome-wide analysis fiber abiotic stress expression profiles cotton |
| title | Comparative Genome-wide Analysis and Expression Profiling of Histone Acetyltransferase (HAT) Gene Family in Response to Hormonal Applications, Metal and Abiotic Stresses in Cotton |
| title_full | Comparative Genome-wide Analysis and Expression Profiling of Histone Acetyltransferase (HAT) Gene Family in Response to Hormonal Applications, Metal and Abiotic Stresses in Cotton |
| title_fullStr | Comparative Genome-wide Analysis and Expression Profiling of Histone Acetyltransferase (HAT) Gene Family in Response to Hormonal Applications, Metal and Abiotic Stresses in Cotton |
| title_full_unstemmed | Comparative Genome-wide Analysis and Expression Profiling of Histone Acetyltransferase (HAT) Gene Family in Response to Hormonal Applications, Metal and Abiotic Stresses in Cotton |
| title_short | Comparative Genome-wide Analysis and Expression Profiling of Histone Acetyltransferase (HAT) Gene Family in Response to Hormonal Applications, Metal and Abiotic Stresses in Cotton |
| title_sort | comparative genome wide analysis and expression profiling of histone acetyltransferase hat gene family in response to hormonal applications metal and abiotic stresses in cotton |
| topic | histone acetyltransferases genome-wide analysis fiber abiotic stress expression profiles cotton |
| url | https://www.mdpi.com/1422-0067/20/21/5311 |
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