Characterization of the late embryogenesis abundant (LEA) proteins family and their role in drought stress tolerance in upland cotton
Abstract Background Late embryogenesis abundant (LEA) proteins are large groups of hydrophilic proteins with major role in drought and other abiotic stresses tolerance in plants. In-depth study and characterization of LEA protein families have been carried out in other plants, but not in upland cott...
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| Format: | Article |
| Language: | English |
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BMC
2018-01-01
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| Series: | BMC Genetics |
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| Online Access: | http://link.springer.com/article/10.1186/s12863-017-0596-1 |
| _version_ | 1811290794557964288 |
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| author | Richard Odongo Magwanga Pu Lu Joy Nyangasi Kirungu Hejun Lu Xingxing Wang Xiaoyan Cai Zhongli Zhou Zhenmei Zhang Haron Salih Kunbo Wang Fang Liu |
| author_facet | Richard Odongo Magwanga Pu Lu Joy Nyangasi Kirungu Hejun Lu Xingxing Wang Xiaoyan Cai Zhongli Zhou Zhenmei Zhang Haron Salih Kunbo Wang Fang Liu |
| author_sort | Richard Odongo Magwanga |
| collection | DOAJ |
| description | Abstract Background Late embryogenesis abundant (LEA) proteins are large groups of hydrophilic proteins with major role in drought and other abiotic stresses tolerance in plants. In-depth study and characterization of LEA protein families have been carried out in other plants, but not in upland cotton. The main aim of this research work was to characterize the late embryogenesis abundant (LEA) protein families and to carry out gene expression analysis to determine their potential role in drought stress tolerance in upland cotton. Increased cotton production in the face of declining precipitation and availability of fresh water for agriculture use is the focus for breeders, cotton being the backbone of textile industries and a cash crop for many countries globally. Results In this work, a total of 242, 136 and 142 LEA genes were identified in G. hirsutum, G. arboreum and G. raimondii respectively. The identified genes were classified into eight groups based on their conserved domain and phylogenetic tree analysis. LEA 2 were the most abundant, this could be attributed to their hydrophobic character. Upland cotton LEA genes have fewer introns and are distributed in all chromosomes. Majority of the duplicated LEA genes were segmental. Syntenic analysis showed that greater percentages of LEA genes are conserved. Segmental gene duplication played a key role in the expansion of LEA genes. Sixty three miRNAs were found to target 89 genes, such as miR164, ghr-miR394 among others. Gene ontology analysis revealed that LEA genes are involved in desiccation and defense responses. Almost all the LEA genes in their promoters contained ABRE, MBS, W-Box and TAC-elements, functionally known to be involved in drought stress and other stress responses. Majority of the LEA genes were involved in secretory pathways. Expression profile analysis indicated that most of the LEA genes were highly expressed in drought tolerant cultivars Gossypium tomentosum as opposed to drought susceptible, G. hirsutum. The tolerant genotypes have a greater ability to modulate genes under drought stress than the more susceptible upland cotton cultivars. Conclusion The finding provides comprehensive information on LEA genes in upland cotton, G. hirsutum and possible function in plants under drought stress. |
| first_indexed | 2024-04-13T04:18:49Z |
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| id | doaj.art-8ca8a02c724d4ac386303854fa90332d |
| institution | Directory Open Access Journal |
| issn | 1471-2156 |
| language | English |
| last_indexed | 2024-04-13T04:18:49Z |
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| spelling | doaj.art-8ca8a02c724d4ac386303854fa90332d2022-12-22T03:02:52ZengBMCBMC Genetics1471-21562018-01-0119113110.1186/s12863-017-0596-1Characterization of the late embryogenesis abundant (LEA) proteins family and their role in drought stress tolerance in upland cottonRichard Odongo Magwanga0Pu Lu1Joy Nyangasi Kirungu2Hejun Lu3Xingxing Wang4Xiaoyan Cai5Zhongli Zhou6Zhenmei Zhang7Haron Salih8Kunbo Wang9Fang Liu10Institute of Cotton Research, Chinese Academy of Agricultural Science (ICR, CAAS)/State Key Laboratory of Cotton BiologyInstitute of Cotton Research, Chinese Academy of Agricultural Science (ICR, CAAS)/State Key Laboratory of Cotton BiologyInstitute of Cotton Research, Chinese Academy of Agricultural Science (ICR, CAAS)/State Key Laboratory of Cotton BiologyInstitute of Cotton Research, Chinese Academy of Agricultural Science (ICR, CAAS)/State Key Laboratory of Cotton BiologyInstitute of Cotton Research, Chinese Academy of Agricultural Science (ICR, CAAS)/State Key Laboratory of Cotton BiologyInstitute of Cotton Research, Chinese Academy of Agricultural Science (ICR, CAAS)/State Key Laboratory of Cotton BiologyInstitute of Cotton Research, Chinese Academy of Agricultural Science (ICR, CAAS)/State Key Laboratory of Cotton BiologyInstitute of Cotton Research, Chinese Academy of Agricultural Science (ICR, CAAS)/State Key Laboratory of Cotton BiologyInstitute of Cotton Research, Chinese Academy of Agricultural Science (ICR, CAAS)/State Key Laboratory of Cotton BiologyInstitute of Cotton Research, Chinese Academy of Agricultural Science (ICR, CAAS)/State Key Laboratory of Cotton BiologyInstitute of Cotton Research, Chinese Academy of Agricultural Science (ICR, CAAS)/State Key Laboratory of Cotton BiologyAbstract Background Late embryogenesis abundant (LEA) proteins are large groups of hydrophilic proteins with major role in drought and other abiotic stresses tolerance in plants. In-depth study and characterization of LEA protein families have been carried out in other plants, but not in upland cotton. The main aim of this research work was to characterize the late embryogenesis abundant (LEA) protein families and to carry out gene expression analysis to determine their potential role in drought stress tolerance in upland cotton. Increased cotton production in the face of declining precipitation and availability of fresh water for agriculture use is the focus for breeders, cotton being the backbone of textile industries and a cash crop for many countries globally. Results In this work, a total of 242, 136 and 142 LEA genes were identified in G. hirsutum, G. arboreum and G. raimondii respectively. The identified genes were classified into eight groups based on their conserved domain and phylogenetic tree analysis. LEA 2 were the most abundant, this could be attributed to their hydrophobic character. Upland cotton LEA genes have fewer introns and are distributed in all chromosomes. Majority of the duplicated LEA genes were segmental. Syntenic analysis showed that greater percentages of LEA genes are conserved. Segmental gene duplication played a key role in the expansion of LEA genes. Sixty three miRNAs were found to target 89 genes, such as miR164, ghr-miR394 among others. Gene ontology analysis revealed that LEA genes are involved in desiccation and defense responses. Almost all the LEA genes in their promoters contained ABRE, MBS, W-Box and TAC-elements, functionally known to be involved in drought stress and other stress responses. Majority of the LEA genes were involved in secretory pathways. Expression profile analysis indicated that most of the LEA genes were highly expressed in drought tolerant cultivars Gossypium tomentosum as opposed to drought susceptible, G. hirsutum. The tolerant genotypes have a greater ability to modulate genes under drought stress than the more susceptible upland cotton cultivars. Conclusion The finding provides comprehensive information on LEA genes in upland cotton, G. hirsutum and possible function in plants under drought stress.http://link.springer.com/article/10.1186/s12863-017-0596-1Cotton (Gossypium spp)IdentificationLEA proteinsmiRNAsGene ontologyGene expression |
| spellingShingle | Richard Odongo Magwanga Pu Lu Joy Nyangasi Kirungu Hejun Lu Xingxing Wang Xiaoyan Cai Zhongli Zhou Zhenmei Zhang Haron Salih Kunbo Wang Fang Liu Characterization of the late embryogenesis abundant (LEA) proteins family and their role in drought stress tolerance in upland cotton BMC Genetics Cotton (Gossypium spp) Identification LEA proteins miRNAs Gene ontology Gene expression |
| title | Characterization of the late embryogenesis abundant (LEA) proteins family and their role in drought stress tolerance in upland cotton |
| title_full | Characterization of the late embryogenesis abundant (LEA) proteins family and their role in drought stress tolerance in upland cotton |
| title_fullStr | Characterization of the late embryogenesis abundant (LEA) proteins family and their role in drought stress tolerance in upland cotton |
| title_full_unstemmed | Characterization of the late embryogenesis abundant (LEA) proteins family and their role in drought stress tolerance in upland cotton |
| title_short | Characterization of the late embryogenesis abundant (LEA) proteins family and their role in drought stress tolerance in upland cotton |
| title_sort | characterization of the late embryogenesis abundant lea proteins family and their role in drought stress tolerance in upland cotton |
| topic | Cotton (Gossypium spp) Identification LEA proteins miRNAs Gene ontology Gene expression |
| url | http://link.springer.com/article/10.1186/s12863-017-0596-1 |
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