TY - JOUR
T1 - Identification and Molecular Characterization of MYB Transcription Factor Superfamily in C4 Model Plant Foxtail Millet (Setaria italica L.)
AU - Muthamilarasana, Mehanathan
AU - Khandelwal, Rohit
AU - Yadav, Chandra
AU - Bonthala, Venkata Suresh
AU - Khan, Yusuf
AU - Prasad, Manoj
N1 - Funding Information:
MM acknowledges the award of Junior Research Fellowship from University Grants Commission, New Delhi, India. Assistance from Ms Jananee Jaishankar and Mr Subodh Verma, NIPGR is greatly appreciated.
Publisher Copyright:
© 2014 Muthamilarasan et al.This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
PY - 2014/10/3
Y1 - 2014/10/3
N2 - MYB proteins represent one of the largest transcription factor families in plants, playing important roles in diverse developmental and stress-responsive processes. Considering its significance, several genome-wide analyses have been conducted in almost all land plants except foxtail millet. Foxtail millet (Setaria italica L.) is a model crop for investigating systems biology of millets and bioenergy grasses. Further, the crop is also known for its potential abiotic stress-tolerance. In this context, a comprehensive genome-wide survey was conducted and 209 MYB protein-encoding genes were identified in foxtail millet. All 209 S. italica MYB (SiMYB) genes were physically mapped onto nine chromosomes of foxtail millet. Gene duplication study showed that segmental- and tandem-duplication have occurred in genome resulting in expansion of this gene family. The protein domain investigation classified SiMYB proteins into three classes according to number of MYB repeats present. The phylogenetic analysis categorized SiMYBs into ten groups (I - X). SiMYB-based comparative mapping revealed a maximum orthology between foxtail millet and sorghum, followed by maize, rice and Brachypodium. Heat map analysis showed tissue-specific expression pattern of predominant SiMYB genes. Expression profiling of candidate MYB genes against abiotic stresses and hormone treatments using qRT-PCR revealed specific and/or overlapping expression patterns of SiMYBs. Taken together, the present study provides a foundation for evolutionary and functional characterization of MYB TFs in foxtail millet to dissect their functions in response to environmental stimuli.
AB - MYB proteins represent one of the largest transcription factor families in plants, playing important roles in diverse developmental and stress-responsive processes. Considering its significance, several genome-wide analyses have been conducted in almost all land plants except foxtail millet. Foxtail millet (Setaria italica L.) is a model crop for investigating systems biology of millets and bioenergy grasses. Further, the crop is also known for its potential abiotic stress-tolerance. In this context, a comprehensive genome-wide survey was conducted and 209 MYB protein-encoding genes were identified in foxtail millet. All 209 S. italica MYB (SiMYB) genes were physically mapped onto nine chromosomes of foxtail millet. Gene duplication study showed that segmental- and tandem-duplication have occurred in genome resulting in expansion of this gene family. The protein domain investigation classified SiMYB proteins into three classes according to number of MYB repeats present. The phylogenetic analysis categorized SiMYBs into ten groups (I - X). SiMYB-based comparative mapping revealed a maximum orthology between foxtail millet and sorghum, followed by maize, rice and Brachypodium. Heat map analysis showed tissue-specific expression pattern of predominant SiMYB genes. Expression profiling of candidate MYB genes against abiotic stresses and hormone treatments using qRT-PCR revealed specific and/or overlapping expression patterns of SiMYBs. Taken together, the present study provides a foundation for evolutionary and functional characterization of MYB TFs in foxtail millet to dissect their functions in response to environmental stimuli.
KW - Chromosome Mapping
KW - Chromosomes, Plant
KW - Evolution, Molecular
KW - Gene Expression Profiling
KW - Gene Expression Regulation, Plant
KW - Gene Ontology
KW - Multigene Family
KW - Phylogeny
KW - Plant Proteins/chemistry
KW - Promoter Regions, Genetic/genetics
KW - Proto-Oncogene Proteins c-myb/chemistry
KW - RNA, Messenger/genetics
KW - Real-Time Polymerase Chain Reaction
KW - Reverse Transcriptase Polymerase Chain Reaction
KW - Setaria Plant/genetics
KW - Transcription Factors/chemistry
UR - http://www.scopus.com/inward/record.url?scp=84912052343&partnerID=8YFLogxK
U2 - 10.1371/journal.pone.0109920
DO - 10.1371/journal.pone.0109920
M3 - Article
C2 - 25279462
SN - 1932-6203
VL - 9
JO - PLoS One
JF - PLoS One
IS - 10
M1 - e109920
ER -