Cargando…
Transcriptome analysis and differential gene expression profiling of wucai (Brassica campestris L.) in response to cold stress
BACKGROUND: Wucai suffers from low temperature during the growth period, resulting in a decline in yield and poor quality. But the molecular mechanisms of cold tolerance in wucai are still unclear. RESULTS: According to the phenotypes and physiological indexes, we screened out the cold-tolerant geno...
Autores principales: | , , , , , , , , , , , |
---|---|
Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
BioMed Central
2022
|
Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8848729/ https://www.ncbi.nlm.nih.gov/pubmed/35168556 http://dx.doi.org/10.1186/s12864-022-08311-3 |
_version_ | 1784652316971892736 |
---|---|
author | Wang, Chenggang Zhang, Mengyun Zhou, Jiajie Gao, Xun Zhu, Shidong Yuan, Lingyun Hou, Xilin Liu, Tongkun Chen, Guohu Tang, Xiaoyan Shan, Guolei Hou, Jinfeng |
author_facet | Wang, Chenggang Zhang, Mengyun Zhou, Jiajie Gao, Xun Zhu, Shidong Yuan, Lingyun Hou, Xilin Liu, Tongkun Chen, Guohu Tang, Xiaoyan Shan, Guolei Hou, Jinfeng |
author_sort | Wang, Chenggang |
collection | PubMed |
description | BACKGROUND: Wucai suffers from low temperature during the growth period, resulting in a decline in yield and poor quality. But the molecular mechanisms of cold tolerance in wucai are still unclear. RESULTS: According to the phenotypes and physiological indexes, we screened out the cold-tolerant genotype “W18” (named CT) and cold-sensitive genotype “Sw-1” (named CS) in six wucai genotypes. We performed transcriptomic analysis using seedling leaves after 24 h of cold treatment. A total of 3536 and 3887 differentially expressed genes (DEGs) were identified between the low temperature (LT) and control (NT) comparative transcriptome in CT and CS, respectively, with 1690 DEGs specific to CT. The gene ontology (GO) analysis showed that the response to cadmium ion (GO:0,046,686), response to jasmonic acid (GO:0,009,753), and response to wounding (GO:0,009,611) were enriched in CT (LT vs NT). The DEGs were enriched in starch and sucrose metabolism and glutathione metabolism in both groups, and α-linolenic acid metabolism was enriched only in CT (LT vs NT). DEGs in these processes, including glutathione S-transferases (GSTs), 13S lipoxygenase (LOX), and jasmonate ZIM-domain (JAZ), as well as transcription factors (TFs), such as the ethylene-responsive transcription factor 53 (ERF53), basic helix-loop-helix 92 (bHLH92), WRKY53, and WRKY54.We hypothesize that these genes play important roles in the response to cold stress in this species. CONCLUSIONS: Our data for wucai is consistent with previous studies that suggest starch and sucrose metabolism increased the content of osmotic substances, and the glutathione metabolism pathway enhance the active oxygen scavenging. These two pathways may participated in response to cold stress. In addition, the activation of α-linolenic acid metabolism may promote the synthesis of methyl jasmonate (MeJA), which might also play a role in the cold tolerance of wucai. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s12864-022-08311-3. |
format | Online Article Text |
id | pubmed-8848729 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2022 |
publisher | BioMed Central |
record_format | MEDLINE/PubMed |
spelling | pubmed-88487292022-02-18 Transcriptome analysis and differential gene expression profiling of wucai (Brassica campestris L.) in response to cold stress Wang, Chenggang Zhang, Mengyun Zhou, Jiajie Gao, Xun Zhu, Shidong Yuan, Lingyun Hou, Xilin Liu, Tongkun Chen, Guohu Tang, Xiaoyan Shan, Guolei Hou, Jinfeng BMC Genomics Research BACKGROUND: Wucai suffers from low temperature during the growth period, resulting in a decline in yield and poor quality. But the molecular mechanisms of cold tolerance in wucai are still unclear. RESULTS: According to the phenotypes and physiological indexes, we screened out the cold-tolerant genotype “W18” (named CT) and cold-sensitive genotype “Sw-1” (named CS) in six wucai genotypes. We performed transcriptomic analysis using seedling leaves after 24 h of cold treatment. A total of 3536 and 3887 differentially expressed genes (DEGs) were identified between the low temperature (LT) and control (NT) comparative transcriptome in CT and CS, respectively, with 1690 DEGs specific to CT. The gene ontology (GO) analysis showed that the response to cadmium ion (GO:0,046,686), response to jasmonic acid (GO:0,009,753), and response to wounding (GO:0,009,611) were enriched in CT (LT vs NT). The DEGs were enriched in starch and sucrose metabolism and glutathione metabolism in both groups, and α-linolenic acid metabolism was enriched only in CT (LT vs NT). DEGs in these processes, including glutathione S-transferases (GSTs), 13S lipoxygenase (LOX), and jasmonate ZIM-domain (JAZ), as well as transcription factors (TFs), such as the ethylene-responsive transcription factor 53 (ERF53), basic helix-loop-helix 92 (bHLH92), WRKY53, and WRKY54.We hypothesize that these genes play important roles in the response to cold stress in this species. CONCLUSIONS: Our data for wucai is consistent with previous studies that suggest starch and sucrose metabolism increased the content of osmotic substances, and the glutathione metabolism pathway enhance the active oxygen scavenging. These two pathways may participated in response to cold stress. In addition, the activation of α-linolenic acid metabolism may promote the synthesis of methyl jasmonate (MeJA), which might also play a role in the cold tolerance of wucai. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s12864-022-08311-3. BioMed Central 2022-02-15 /pmc/articles/PMC8848729/ /pubmed/35168556 http://dx.doi.org/10.1186/s12864-022-08311-3 Text en © The Author(s) 2022 https://creativecommons.org/licenses/by/4.0/Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) . The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/ (https://creativecommons.org/publicdomain/zero/1.0/) ) applies to the data made available in this article, unless otherwise stated in a credit line to the data. |
spellingShingle | Research Wang, Chenggang Zhang, Mengyun Zhou, Jiajie Gao, Xun Zhu, Shidong Yuan, Lingyun Hou, Xilin Liu, Tongkun Chen, Guohu Tang, Xiaoyan Shan, Guolei Hou, Jinfeng Transcriptome analysis and differential gene expression profiling of wucai (Brassica campestris L.) in response to cold stress |
title | Transcriptome analysis and differential gene expression profiling of wucai (Brassica campestris L.) in response to cold stress |
title_full | Transcriptome analysis and differential gene expression profiling of wucai (Brassica campestris L.) in response to cold stress |
title_fullStr | Transcriptome analysis and differential gene expression profiling of wucai (Brassica campestris L.) in response to cold stress |
title_full_unstemmed | Transcriptome analysis and differential gene expression profiling of wucai (Brassica campestris L.) in response to cold stress |
title_short | Transcriptome analysis and differential gene expression profiling of wucai (Brassica campestris L.) in response to cold stress |
title_sort | transcriptome analysis and differential gene expression profiling of wucai (brassica campestris l.) in response to cold stress |
topic | Research |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8848729/ https://www.ncbi.nlm.nih.gov/pubmed/35168556 http://dx.doi.org/10.1186/s12864-022-08311-3 |
work_keys_str_mv | AT wangchenggang transcriptomeanalysisanddifferentialgeneexpressionprofilingofwucaibrassicacampestrislinresponsetocoldstress AT zhangmengyun transcriptomeanalysisanddifferentialgeneexpressionprofilingofwucaibrassicacampestrislinresponsetocoldstress AT zhoujiajie transcriptomeanalysisanddifferentialgeneexpressionprofilingofwucaibrassicacampestrislinresponsetocoldstress AT gaoxun transcriptomeanalysisanddifferentialgeneexpressionprofilingofwucaibrassicacampestrislinresponsetocoldstress AT zhushidong transcriptomeanalysisanddifferentialgeneexpressionprofilingofwucaibrassicacampestrislinresponsetocoldstress AT yuanlingyun transcriptomeanalysisanddifferentialgeneexpressionprofilingofwucaibrassicacampestrislinresponsetocoldstress AT houxilin transcriptomeanalysisanddifferentialgeneexpressionprofilingofwucaibrassicacampestrislinresponsetocoldstress AT liutongkun transcriptomeanalysisanddifferentialgeneexpressionprofilingofwucaibrassicacampestrislinresponsetocoldstress AT chenguohu transcriptomeanalysisanddifferentialgeneexpressionprofilingofwucaibrassicacampestrislinresponsetocoldstress AT tangxiaoyan transcriptomeanalysisanddifferentialgeneexpressionprofilingofwucaibrassicacampestrislinresponsetocoldstress AT shanguolei transcriptomeanalysisanddifferentialgeneexpressionprofilingofwucaibrassicacampestrislinresponsetocoldstress AT houjinfeng transcriptomeanalysisanddifferentialgeneexpressionprofilingofwucaibrassicacampestrislinresponsetocoldstress |