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Unrooted phylogenetic tree constructed from seven different multiple sequence alignments of the 16S-23S ITS1 region of Streptomyces spp. Sequence distances were established by using the neighbour-joining method. Bootstrapping values (from 1000 bootstrap trials) are given at respective nodes. GenBank accession numbers for the sequences used to construct this tree are given in Table 1. (Bar=0.05 nucleotide substitutions per position)
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Streptomycetes, the Gram positive bacteria commonly found in soil, are among the well known antibiotic producers of microbial world. Moreover, Streptomyces spp. produce about 75% of commercially and medically useful antibiotics. They have provided more than half of the naturally occurring antibiotics discovered to date and continue to be screened f...
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Context 1
... phylogenetic trees constructed using seven different algorithms by the neighbor-joining method and comparing the ITS1 sequences retrieved showed a variation in the clustering of selected isolates because of their differences in alignment algorithm (Fig. 5). Moreover, the current phylogenetic tree reconstructions can not infer a single underlying tree topology for each informative site along a sequence. This ultimately leads to overestimation of phylogenetic distances giving misleading results. Therefore, we propose that the use of ITS1 liner sequences in case of Streptomyces for ...
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The 16S ribosomal RNA gene is the gold standard for taxonomic identification and phylogenetic study of most of the bacteria. However, the resolution of 16S rRNA gene is found to be insufficient to distinguish closely related Streptomyces species within the genus Streptomyces due to large size of Streptomyces member. Thus, it is essential to find alternative phylogenetic gene markers with higher discriminatory power in addition to 16S rRNA gene for the phylogenetic analysis of Streptomyces species in order to effectively indicate the evolutionary relationships among Streptomyces members at intra- and inter-specific level. This article aimed to discussed the resolution power of ribosomal genes (16S rRNA and 23S rRNA gene), of protein-coding genes (gyrB and trpB gene) and between ribosomal and protein-coding genes in order to identify gene that could provide better resolution for phylogenetic studies of Streptomyces.
... The occurrence of life forms in a region can be linked to many ecological factors. The factors and habitats in NE India are well known to be decisive in microbial diversity distribution [18][19][20][21][22][23][24][25][26][27][28][29][30][31][32][33][34][35] . The present database holds data on soil microbes generated through primary data collection undertaken for various niches of NE India. ...
Northeast Microbial Database (NEMiD) is a first of its kind digital database on microbial diversity from North East (NE) India, which provides information on culturable microbes (bacteria, fungi and actinomycetes) isolated from soils of the region (Arunachal Pradesh, Assam, Manipur, Meghalaya, Mizoram, Nagaland, Tripura, Sikkim and parts of North Bengal) distributed across landscape elements (LSE) spread in various ecosystems. The database is based on the primary data generated through survey, isolation and characterization of the microbes during 2008–2012. Details on a particular microorganism in the database cover aspects of phylogenetic information on taxonomic outline and classification, morphological, biochemical and molecular characterization, general and cultural characteristics, geographical/location information, history of cultures and preservation details. Each microbe is identified based on cultural, biochemical and molecular characteristics leading to its taxonomic position up to the species level along with information on sampling sites comprising altitude, soil type, latitude, longitude, soil temperature, ambient temperature, humidity and soil pH. The database is available on-line at www.mblabnehu.info/nemid/.
