Genome-wide investigation of WRKY gene family in pineapple: evolution and expression profiles during development and stress
Abstract Background WRKY proteins comprise a large family of transcription factors that play important roles in many aspects of physiological processes and adaption to environment. However, little information was available about the WRKY genes in pineapple (Ananas comosus), an important tropical fru...
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BMC
2018-06-01
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| Series: | BMC Genomics |
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| Online Access: | http://link.springer.com/article/10.1186/s12864-018-4880-x |
| _version_ | 1818621516274728960 |
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| author | Tao Xie Chengjie Chen Chuhao Li Jiarou Liu Chaoyang Liu Yehua He |
| author_facet | Tao Xie Chengjie Chen Chuhao Li Jiarou Liu Chaoyang Liu Yehua He |
| author_sort | Tao Xie |
| collection | DOAJ |
| description | Abstract Background WRKY proteins comprise a large family of transcription factors that play important roles in many aspects of physiological processes and adaption to environment. However, little information was available about the WRKY genes in pineapple (Ananas comosus), an important tropical fruits. The recent release of the whole-genome sequence of pineapple allowed us to perform a genome-wide investigation into the organization and expression profiling of pineapple WRKY genes. Results In the present study, 54 pineapple WRKY (AcWRKY) genes were identified and renamed on the basis of their respective chromosome distribution. According to their structural and phylogenetic features, the 54 AcWRKYs were further classified into three main groups with several subgroups. The segmental duplication events played a major role in the expansion of pineapple WRKY gene family. Synteny analysis and phylogenetic comparison of group III WRKY genes provided deep insight into the evolutionary characteristics of pineapple WRKY genes. Expression profiles derived from transcriptome data and real-time quantitative PCR analysis exhibited distinct expression patterns of AcWRKY genes in various tissues and in response to different abiotic stress and hormonal treatments. Conclusions Fifty four WRKY genes were identified in pineapple and the structure of their encoded proteins, their evolutionary characteristics and expression patterns were examined in this study. This systematic analysis provided a foundation for further functional characterization of WRKY genes with an aim of pineapple crop improvement. |
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| id | doaj.art-fafcc74c26cc443d85295ffb4a34611b |
| institution | Directory Open Access Journal |
| issn | 1471-2164 |
| language | English |
| last_indexed | 2024-12-16T18:10:31Z |
| publishDate | 2018-06-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Genomics |
| spelling | doaj.art-fafcc74c26cc443d85295ffb4a34611b2022-12-21T22:21:48ZengBMCBMC Genomics1471-21642018-06-0119111810.1186/s12864-018-4880-xGenome-wide investigation of WRKY gene family in pineapple: evolution and expression profiles during development and stressTao Xie0Chengjie Chen1Chuhao Li2Jiarou Liu3Chaoyang Liu4Yehua He5Key Laboratory of Biology and Germplasm Enhancement of Horticultural Crops in South China, Ministry of Agriculture, South China Agricultural UniversityKey Laboratory of Biology and Germplasm Enhancement of Horticultural Crops in South China, Ministry of Agriculture, South China Agricultural UniversityKey Laboratory of Biology and Germplasm Enhancement of Horticultural Crops in South China, Ministry of Agriculture, South China Agricultural UniversityKey Laboratory of Biology and Germplasm Enhancement of Horticultural Crops in South China, Ministry of Agriculture, South China Agricultural UniversityKey Laboratory of Biology and Germplasm Enhancement of Horticultural Crops in South China, Ministry of Agriculture, South China Agricultural UniversityKey Laboratory of Biology and Germplasm Enhancement of Horticultural Crops in South China, Ministry of Agriculture, South China Agricultural UniversityAbstract Background WRKY proteins comprise a large family of transcription factors that play important roles in many aspects of physiological processes and adaption to environment. However, little information was available about the WRKY genes in pineapple (Ananas comosus), an important tropical fruits. The recent release of the whole-genome sequence of pineapple allowed us to perform a genome-wide investigation into the organization and expression profiling of pineapple WRKY genes. Results In the present study, 54 pineapple WRKY (AcWRKY) genes were identified and renamed on the basis of their respective chromosome distribution. According to their structural and phylogenetic features, the 54 AcWRKYs were further classified into three main groups with several subgroups. The segmental duplication events played a major role in the expansion of pineapple WRKY gene family. Synteny analysis and phylogenetic comparison of group III WRKY genes provided deep insight into the evolutionary characteristics of pineapple WRKY genes. Expression profiles derived from transcriptome data and real-time quantitative PCR analysis exhibited distinct expression patterns of AcWRKY genes in various tissues and in response to different abiotic stress and hormonal treatments. Conclusions Fifty four WRKY genes were identified in pineapple and the structure of their encoded proteins, their evolutionary characteristics and expression patterns were examined in this study. This systematic analysis provided a foundation for further functional characterization of WRKY genes with an aim of pineapple crop improvement.http://link.springer.com/article/10.1186/s12864-018-4880-xPineappleWRKYGenome-wideExpression patternsAbiotic stress |
| spellingShingle | Tao Xie Chengjie Chen Chuhao Li Jiarou Liu Chaoyang Liu Yehua He Genome-wide investigation of WRKY gene family in pineapple: evolution and expression profiles during development and stress BMC Genomics Pineapple WRKY Genome-wide Expression patterns Abiotic stress |
| title | Genome-wide investigation of WRKY gene family in pineapple: evolution and expression profiles during development and stress |
| title_full | Genome-wide investigation of WRKY gene family in pineapple: evolution and expression profiles during development and stress |
| title_fullStr | Genome-wide investigation of WRKY gene family in pineapple: evolution and expression profiles during development and stress |
| title_full_unstemmed | Genome-wide investigation of WRKY gene family in pineapple: evolution and expression profiles during development and stress |
| title_short | Genome-wide investigation of WRKY gene family in pineapple: evolution and expression profiles during development and stress |
| title_sort | genome wide investigation of wrky gene family in pineapple evolution and expression profiles during development and stress |
| topic | Pineapple WRKY Genome-wide Expression patterns Abiotic stress |
| url | http://link.springer.com/article/10.1186/s12864-018-4880-x |
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