PJB-2018-790
GENOME-WIDE INVESTIGATION AND EXPRESSION ANALYSIS OF AP2 TRANSCRIPTION FACTOR SUB-FAMILY REVEALS ITS EVOLUTION, EXPANSION AND REGULATORY ROLE IN DEVELOPMENTAL PROCESSES IN INDICA RICE (ORYZA SATIVA L. SSP. INDICA)
Rana Muhammad Atif
Abstract
Genes in the APETALA-2 (AP2) family encode transcriptional regulators implicated not only during developmental processes but also during abiotic stresses. However, the characterization of AP2 genes is still a challenge. The 26 genes in Indica rice encoding AP2 transcription-factor subfamily distributed among eleven chromosomes were identified. OsAP2 genes structure comprised of 4-9 introns. Phylogenetic analysis of OsAP2 TF family-members grouped them into three major groups indicating the paralogous genes. Segmental duplication seemed to be principal route of evolution AP2 genes in rice, supporting the higher positive selection pressure during evolution. It was suggested that segmental duplications originated about 2.36 to 101.40 million years ago (Mya); while tandem duplication about 13.66 Mya in AP2 subfamily. Conserved domain analysis revealed that the conserved domains are exclusively distributed among the specific clades of the phylogenetic tree. MicroRNA study indicated that osa-miR172 family was potentially targeting four AP2 members in rice. Expression analysis illustrated the tissue-specific expression of OsAP2 genes. However, the high expression of seed tissues suggested their role in seed development. Based on orthologous genes from Arabidopsis, several AP2 genes in rice were identified to be involved in the developmental process. The phylogenetic and haplotyping study showed the highly diverse haplotype of AP2.
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