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Investigation of genes encoding calcineurin B-like protein family in legumes and their expression analyses in chickpea (Cicer arietinum L.).

Meena MK, Ghawana S, Sardar A, Dwivedi V, Khandal H, Roy R, Chattopadhyay D - PLoS ONE (2015)

Bottom Line: Most of the CaCBL genes exhibited high expression in flowers.Expression profile of CaCBL genes in response to different abiotic stresses and hormones related to development and stresses (ABA, auxin, cytokinin, SA and JA) at different time intervals suggests their diverse roles in development and plant defence in addition to abiotic stress tolerance.These data not only contribute to a better understanding of the complex regulation of chickpea CBL gene family, but also provide valuable information for further research in chickpea functional genomics.

View Article: PubMed Central - PubMed

Affiliation: National Institute of Plant Genome Research, Aruna Asaf Ali Marg, New Delhi, 110067, India.

ABSTRACT
Calcium ion (Ca2+) is a ubiquitous second messenger that transmits various internal and external signals including stresses and, therefore, is important for plants' response process. Calcineurin B-like proteins (CBLs) are one of the plant calcium sensors, which sense and convey the changes in cytosolic Ca2+-concentration for response process. A search in four leguminous plant (soybean, Medicago truncatula, common bean and chickpea) genomes identified 9 to 15 genes in each species that encode CBL proteins. Sequence analyses of CBL peptides and coding sequences (CDS) suggested that there are nine original CBL genes in these legumes and some of them were multiplied during whole genome or local gene duplication. Coding sequences of chickpea CBL genes (CaCBL) were cloned from their cDNAs and sequenced, and their annotations in the genome assemblies were corrected accordingly. Analyses of protein sequences and gene structures of CBL family in plant kingdom indicated its diverse origin but showed a remarkable conservation in overall protein structure with appearance of complex gene structure in the course of evolution. Expression of CaCBL genes in different tissues and in response to different stress and hormone treatment were studied. Most of the CaCBL genes exhibited high expression in flowers. Expression profile of CaCBL genes in response to different abiotic stresses and hormones related to development and stresses (ABA, auxin, cytokinin, SA and JA) at different time intervals suggests their diverse roles in development and plant defence in addition to abiotic stress tolerance. These data not only contribute to a better understanding of the complex regulation of chickpea CBL gene family, but also provide valuable information for further research in chickpea functional genomics.

No MeSH data available.


Phylogenetic relationship of CBL proteins from soybean, common bean, Medicago truncatula and chickpea with CBLs from other species.Peptide sequences were aligned by Clustal X and the tree was constructed by neighbour-joining method by using MEGAv6. The number denotes the bootstrap values.
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pone.0123640.g001: Phylogenetic relationship of CBL proteins from soybean, common bean, Medicago truncatula and chickpea with CBLs from other species.Peptide sequences were aligned by Clustal X and the tree was constructed by neighbour-joining method by using MEGAv6. The number denotes the bootstrap values.

Mentions: To study phylogenetic relationship between CBL proteins from different species, peptide sequences of CBLs from Arabidopsis, chickpea, Medicago, common bean, soybean, Chlorella, Ostreococcus and Physcomitrella were used to construct an unrooted tree. Phylogenetic analysis suggested that legume CBL proteins can be distributed into 4 subgroups (Fig 1). As expected, only two legume CBLs, one each from Medicago and common bean, grouped in the same clade with AtCBL7 and AtCBL10. Nine chickpea CBLs were equally distributed in three other groups and distribution of other CBLs from other legume plants were almost equal in these three groups. Sequences of AtCBL1 and AtCBL9 are very similar and so the sequences of AtCBL2 and AtCBL3. They are grouped with each other with high bootstrap values indicating that they are results of gene duplication. However, their orthologs in chickpea are grouped separately suggesting that they were originated through a different course of evolution. The duplicated genes of soybean and Medicago were also grouped together.


Investigation of genes encoding calcineurin B-like protein family in legumes and their expression analyses in chickpea (Cicer arietinum L.).

Meena MK, Ghawana S, Sardar A, Dwivedi V, Khandal H, Roy R, Chattopadhyay D - PLoS ONE (2015)

Phylogenetic relationship of CBL proteins from soybean, common bean, Medicago truncatula and chickpea with CBLs from other species.Peptide sequences were aligned by Clustal X and the tree was constructed by neighbour-joining method by using MEGAv6. The number denotes the bootstrap values.
© Copyright Policy
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4390317&req=5

pone.0123640.g001: Phylogenetic relationship of CBL proteins from soybean, common bean, Medicago truncatula and chickpea with CBLs from other species.Peptide sequences were aligned by Clustal X and the tree was constructed by neighbour-joining method by using MEGAv6. The number denotes the bootstrap values.
Mentions: To study phylogenetic relationship between CBL proteins from different species, peptide sequences of CBLs from Arabidopsis, chickpea, Medicago, common bean, soybean, Chlorella, Ostreococcus and Physcomitrella were used to construct an unrooted tree. Phylogenetic analysis suggested that legume CBL proteins can be distributed into 4 subgroups (Fig 1). As expected, only two legume CBLs, one each from Medicago and common bean, grouped in the same clade with AtCBL7 and AtCBL10. Nine chickpea CBLs were equally distributed in three other groups and distribution of other CBLs from other legume plants were almost equal in these three groups. Sequences of AtCBL1 and AtCBL9 are very similar and so the sequences of AtCBL2 and AtCBL3. They are grouped with each other with high bootstrap values indicating that they are results of gene duplication. However, their orthologs in chickpea are grouped separately suggesting that they were originated through a different course of evolution. The duplicated genes of soybean and Medicago were also grouped together.

Bottom Line: Most of the CaCBL genes exhibited high expression in flowers.Expression profile of CaCBL genes in response to different abiotic stresses and hormones related to development and stresses (ABA, auxin, cytokinin, SA and JA) at different time intervals suggests their diverse roles in development and plant defence in addition to abiotic stress tolerance.These data not only contribute to a better understanding of the complex regulation of chickpea CBL gene family, but also provide valuable information for further research in chickpea functional genomics.

View Article: PubMed Central - PubMed

Affiliation: National Institute of Plant Genome Research, Aruna Asaf Ali Marg, New Delhi, 110067, India.

ABSTRACT
Calcium ion (Ca2+) is a ubiquitous second messenger that transmits various internal and external signals including stresses and, therefore, is important for plants' response process. Calcineurin B-like proteins (CBLs) are one of the plant calcium sensors, which sense and convey the changes in cytosolic Ca2+-concentration for response process. A search in four leguminous plant (soybean, Medicago truncatula, common bean and chickpea) genomes identified 9 to 15 genes in each species that encode CBL proteins. Sequence analyses of CBL peptides and coding sequences (CDS) suggested that there are nine original CBL genes in these legumes and some of them were multiplied during whole genome or local gene duplication. Coding sequences of chickpea CBL genes (CaCBL) were cloned from their cDNAs and sequenced, and their annotations in the genome assemblies were corrected accordingly. Analyses of protein sequences and gene structures of CBL family in plant kingdom indicated its diverse origin but showed a remarkable conservation in overall protein structure with appearance of complex gene structure in the course of evolution. Expression of CaCBL genes in different tissues and in response to different stress and hormone treatment were studied. Most of the CaCBL genes exhibited high expression in flowers. Expression profile of CaCBL genes in response to different abiotic stresses and hormones related to development and stresses (ABA, auxin, cytokinin, SA and JA) at different time intervals suggests their diverse roles in development and plant defence in addition to abiotic stress tolerance. These data not only contribute to a better understanding of the complex regulation of chickpea CBL gene family, but also provide valuable information for further research in chickpea functional genomics.

No MeSH data available.