TY - JOUR
T1 - Transcriptome-wide identification and computational insights into protein modeling and docking of CAMTA transcription factors in Eleusine coracana L (finger millet)
AU - Kadri, Syeda Ulfath Tazeen
AU - Mulla, Sikandar I.
AU - Babu R, Nagesh
AU - Suchithra, B.
AU - Bilal, Muhammad
AU - Ameen, Fuad
AU - Bharagava, Ram Naresh
AU - Saratale, Ganesh Dattatraya
AU - Ferreira, Luiz Fernando Romanholo
AU - Américo-Pinheiro, Juliana Heloisa Pinê
N1 - Publisher Copyright:
© 2022 Elsevier B.V.
PY - 2022/5/1
Y1 - 2022/5/1
N2 - Calmodulin-binding transcription activator (CAMTA) are a group of transcription factors that are known to perform various important biological functions in plants. Here, we report 7 putative CAMTA transcription factors identified from finger millet transcriptome data. They were further analyzed for physicochemical properties, subcellular localization, conserved domains and motifs, Gene Ontology (GO) terms, phylogeny, 3D structure prediction and CAMTA-Ca2+-Calmodulin interaction through protein-protein docking. All EcCAMTAs were found to be localized in the nucleus and possessed a calmodulin binding domain (CaMBD). GO results indicated the involvement of CAMTAs in DNA binding and protein binding molecular functions. Phylogenetic analysis classified EcCAMTA genes into 3-subgroups. 3D-structure of CAMTA proteins was elucidated through ab-initio protein modeling and its interaction with Calmodulin was investigated by docking studies. Our study provides molecular insight into the structure and function of CAMTA genes in finger millet and also highlights the role of omics-based in-silico approaches for identification of novel gene families in the absence of a reference genome or annotated database. This being the first study of CAMTA transcription factor family in finger millet, it could serve as a resource for further studies of CAMTA genes either in finger millet or other related millets and cereal crops.
AB - Calmodulin-binding transcription activator (CAMTA) are a group of transcription factors that are known to perform various important biological functions in plants. Here, we report 7 putative CAMTA transcription factors identified from finger millet transcriptome data. They were further analyzed for physicochemical properties, subcellular localization, conserved domains and motifs, Gene Ontology (GO) terms, phylogeny, 3D structure prediction and CAMTA-Ca2+-Calmodulin interaction through protein-protein docking. All EcCAMTAs were found to be localized in the nucleus and possessed a calmodulin binding domain (CaMBD). GO results indicated the involvement of CAMTAs in DNA binding and protein binding molecular functions. Phylogenetic analysis classified EcCAMTA genes into 3-subgroups. 3D-structure of CAMTA proteins was elucidated through ab-initio protein modeling and its interaction with Calmodulin was investigated by docking studies. Our study provides molecular insight into the structure and function of CAMTA genes in finger millet and also highlights the role of omics-based in-silico approaches for identification of novel gene families in the absence of a reference genome or annotated database. This being the first study of CAMTA transcription factor family in finger millet, it could serve as a resource for further studies of CAMTA genes either in finger millet or other related millets and cereal crops.
KW - 3D modeling
KW - CAMTA transcription factors
KW - Finger millet
KW - Protein-protein docking
KW - Transcriptome data
UR - http://www.scopus.com/inward/record.url?scp=85126533162&partnerID=8YFLogxK
U2 - 10.1016/j.ijbiomac.2022.03.073
DO - 10.1016/j.ijbiomac.2022.03.073
M3 - Article
C2 - 35306013
AN - SCOPUS:85126533162
SN - 0141-8130
VL - 206
SP - 768
EP - 776
JO - International Journal of Biological Macromolecules
JF - International Journal of Biological Macromolecules
ER -