Data mining and phylogenetic analysis of nifA gene sequences using nodule-forming Azorhizobium strain

Divya Sindhu, Saurabh Sindhu, S. K. Yadav

Abstract: In the post-genomic era involving novel sequencing technologies, different nitrogen fixation (nif) genes encoding nitrogenase enzyme proteins have been identified through comparative genomic and mutational analysis along with transcriptional profiling. In earlier studies, nifH gene sequences have been used as a molecular marker for the phylogenetic distribution of diazotrophs. In the present study, nifA gene sequences from Azorhizobium caulinodans (Sesbania nodulating bacteria) and 24 different nitrogen-fixing bacterial species were retrieved from NCBI GenBank and phylogenetic analysis was performed using Maximum likelihood method. nifA gene nucleotide sequences of Azorhizobium caulinodans showed similarity with the Rhodoblastus sphagnicola, Rhodoblastus acidophilus and Rhodopila globiformis. Other nodule-forming bacteria Mesorhizobium mediterraneum, Mesorhizobium ciceri and Bradyrhizobium japonicum were found closely related, whereas Rhizobium leguminosarum, Rhizobium etli and Sinorhizobium meliloti were found distantly related. The associative symbionts i.e., Azospirillum lipoferum and Azospirillum brasilense were also found closely related, whereas free-living nitrogen-fixing bacteria Klebsiella pneumoniae and Azotobacter vinelandii were distantly related. Using boot strap method, Rhodoblastus sphagnicola, Rhodoblastus acidophilus and Rhodopseudomonas palustris, Azospirillum lipoferum and Azospirillum brasilense and Bradyrhizobium japonicum were found closely related with nifA sequences of Azorhizobium caulinodans. On the other hand, Sinorhizobium meliloti, Rhizobium leguminosarum, Klebsiella pneumoniae and Azotobacter vinelandii as well as Rhodobacter capsulatus were found distantly related. Keywords: Data mining, Phylogenetic analysis, Nitrogen fixation, nifA gene, Nucleotide sequences, Azorhizobium caulinodans

Title:	Data mining and phylogenetic analysis of nifA gene sequences using nodule-forming Azorhizobium strain
Author Name:	Divya Sindhu, Saurabh Sindhu, S. K. Yadav
Abstract:	Abstract: In the post-genomic era involving novel sequencing technologies, different nitrogen fixation (nif) genes encoding nitrogenase enzyme proteins have been identified through comparative genomic and mutational analysis along with transcriptional profiling. In earlier studies, nifH gene sequences have been used as a molecular marker for the phylogenetic distribution of diazotrophs. In the present study, nifA gene sequences from Azorhizobium caulinodans (Sesbania nodulating bacteria) and 24 different nitrogen-fixing bacterial species were retrieved from NCBI GenBank and phylogenetic analysis was performed using Maximum likelihood method. nifA gene nucleotide sequences of Azorhizobium caulinodans showed similarity with the Rhodoblastus sphagnicola, Rhodoblastus acidophilus and Rhodopila globiformis. Other nodule-forming bacteria Mesorhizobium mediterraneum, Mesorhizobium ciceri and Bradyrhizobium japonicum were found closely related, whereas Rhizobium leguminosarum, Rhizobium etli and Sinorhizobium meliloti were found distantly related. The associative symbionts i.e., Azospirillum lipoferum and Azospirillum brasilense were also found closely related, whereas free-living nitrogen-fixing bacteria Klebsiella pneumoniae and Azotobacter vinelandii were distantly related. Using boot strap method, Rhodoblastus sphagnicola, Rhodoblastus acidophilus and Rhodopseudomonas palustris, Azospirillum lipoferum and Azospirillum brasilense and Bradyrhizobium japonicum were found closely related with nifA sequences of Azorhizobium caulinodans. On the other hand, Sinorhizobium meliloti, Rhizobium leguminosarum, Klebsiella pneumoniae and Azotobacter vinelandii as well as Rhodobacter capsulatus were found distantly related. Keywords: Data mining, Phylogenetic analysis, Nitrogen fixation, nifA gene, Nucleotide sequences, Azorhizobium caulinodans
Cite this article:	Divya Sindhu, Saurabh Sindhu, S. K. Yadav , " Data mining and phylogenetic analysis of nifA gene sequences using nodule-forming Azorhizobium strain " , International Journal of Emerging Trends & Technology in Computer Science (IJETTCS), Volume 10, Issue 1, January - February 2021 , pp. 001-008 , ISSN 2278-6856.
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