16sr dna sequence analysis software#
Analysis revealed that majority of marine species found in marine biofilm are of anthropogenic origin. Standard comparative 16S rDNA sequence analysis and reconstruction of phylogenetic trees were done by using the ARB software package (8). The length of sequences obtained dif-fered for each primer but were sufficient to provide 5- to 8-fold sequence coverage. Among the 16 strains, representatives of the Firmicutes were dominant (56.25%) compared to the high GC, Gram-positive bacteria (18.75%), G-Proteobacteria (12.5%), CFB group bacteria (6.25%), and Enterobacteria (6.25%). Sequencing products were purified by using Centri-Sep spin columns (Princeton Separations, Adelphia, NJ) and were resolved on an Applied BioSystems model 3100 automated DNA sequencing system (Applied BioSystems). 16S rDNA Sequencing Much of microbial taxonomy and metagenomic analyses nowadays are based on studies of the bacterial 16S ribosomal RNA gene (16S). Phylogenetic analysis using 16S rDNA sequences indicated that the 16 strains belonged to the Firmicutes (IK-MB6 Exiguobacterium aurantiacum, IK-MB7 Exiguobacterium arabatum, IK-MB8 Exiguobacterium arabatum, IK-MB9 Jeotgalibacillus alimentarius, IK-MB10 Bacillus megaterium, IK-MB11 Bacillus pumilus, IK-MB12 Bacillus pumilus, IK-MB13 Bacillus pumilus, IK-MB14 Bacillus megaterium), High GC, Gram-positive bacteria (IK-MB2 Micrococcus luteus, IK-MB5 Micrococcus luteus, IK-MB16 Arthrobacter mysorens), G-Proteobacteria (IK-MB3 Halomonas aquamarina, IK-MB15 Halotalea alkalilenta), CFB group bacteria (IK-MB1 Myroides odoratimimus), and Enterobacteria (IK-MB4 Proteus mirabilis). With an average length of 946 bp, all the 16 sequences were classified using the Ribosomal database project (RDP) and were submitted to the National Center for Biotechnology Information. In this study, we evaluated the utility of 16S rDNA sequencing as a means to identify a collection of 177 such isolates obtained from environmental, veterinary. 16S rRNA or rDNA sequence analysis has become a major tool in the determination of relationships between bacteria, and it is widely used for identification. First, 16S is well suited for multiple patients, longitudinal studies, but provides limited taxonomic and functional information. But it is also limited by several disadvantages. Polymerase chain reaction (PCR) amplification of 16SrDNA gene using the consensus bacterial primer and separation of the resulting polymer chain reaction amplicon by cloning. Marine bacteria from the hull of a ship in the form of biofilms or microfouling were isolated, cultured, and identified by phylogenetic analysis using 16S rDNA sequences. However, as yet, the usefulness of 16S rDNA sequence analysis in the identification of conventionally unidentifiable isolates has not been evaluated with a large collection of isolates. 16S rRNA amplicon sequencing is popular due to its cost-efficient, time-effective, and informative features. This study is an automaton of 16Sr DNA gene sequence that allows a queue comparison analysis of published sequences deposited in the microbial genome database was used.
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