scholarly journals Evolution and Functional Analysis of orf1 Within nif Gene Cluster from Paenibacillus graminis RSA19

2019 ◽  
Vol 20 (5) ◽  
pp. 1145 ◽  
Author(s):  
Qin Li ◽  
Xiaomeng Liu ◽  
Haowei Zhang ◽  
Sanfeng Chen
Keyword(s):  
Nitrogen Fixation ◽  
Gene Cluster ◽  
Gene Clusters ◽  
Amino Acid Sequences ◽  
Transcriptional Analysis ◽  
Facultative Anaerobic ◽  
Orf1 Gene ◽  
Nif Gene ◽  
Nif Gene Cluster ◽  
Paenibacillus Species

Paenibacillus is a genus of Gram-positive, facultative anaerobic and endospore-forming bacteria. Genomic sequence analysis has revealed that a compact nif (nitrogen fixation) gene cluster comprising 9–10 genes nifBHDKENX(orf1)hesAnifV is conserved in diazotrophic Paenibacillus species. The evolution and function of the orf1 gene within the nif gene cluster of Paenibacillus species is unknown. In this study, a careful comparison analysis of the compositions of the nif gene clusters from various diazotrophs revealed that orf1 located downstream of nifENX was identified in anaerobic Clostridium ultunense, the facultative anaerobic Paenibacillus species and aerobic diazotrophs (e.g., Azotobacter vinelandii and Azospirillum brasilense). The predicted amino acid sequences encoded by the orf1 gene, part of the nif gene cluster nifBHDKENXorf1hesAnifV in Paenibacillus graminis RSA19, showed 60–90% identity with those of the orf1 genes located downstream of nifENX from different diazotrophic Paenibacillus species, but shared no significant identity with those of the orf1 genes from different taxa of diazotrophic organisms. Transcriptional analysis showed that the orf1 gene was expressed under nitrogen fixation conditions from the promoter located upstream from nifB. Mutational analysis suggested that the orf1 gene functions in nitrogen fixation in the presence of a high concentration of O2.

Analysis of regulation of Klebsiella pneumoniae nitrogen fixation (nif) gene cluster with gene fusions

Nature ◽  
1980 ◽  
Vol 286 (5769) ◽  
pp. 128-132 ◽  
Author(s):  
Ray Dixon ◽  
Robert R. Eady ◽  
Guadalupe Espin ◽  
Susan Hill ◽  
Maurizio Iaccarino ◽  
...  
Keyword(s):  
Nitrogen Fixation ◽  
Klebsiella Pneumoniae ◽  
Gene Cluster ◽  
Gene Fusions ◽  
Nif Gene ◽  
Nif Gene Cluster

Cloning of a nitrogen fixation (nif) gene cluster of Azospirillum brasilense

Biochimie ◽  
1982 ◽  
Vol 64 (7) ◽  
pp. 495-502 ◽  
Author(s):  
Bernadette Quiviger ◽  
Claudine Franche ◽  
Georges Lutfalla ◽  
Douglas Rice ◽  
Robert Haselkorn ◽  
...  
Keyword(s):  
Nitrogen Fixation ◽  
Gene Cluster ◽  
Azospirillum Brasilense ◽  
Nif Gene ◽  
Nif Gene Cluster

Cloning of the glnA, ntrB and ntrC genes of Klebsiella pneumoniae and studies of their role in regulation of the nitrogen fixation (nif) gene cluster

1982 ◽  
Vol 186 (4) ◽  
pp. 518-524 ◽  
Author(s):  
Guadalupe Espin ◽  
Ariel Alvarez-Morales ◽  
Frank Cannon ◽  
Ray Dixon ◽  
Mike Merrick
Keyword(s):  
Nitrogen Fixation ◽  
Klebsiella Pneumoniae ◽  
Gene Cluster ◽  
Nif Gene ◽  
Nif Gene Cluster

Characterization and analysis of an industrial strain of Streptomyces bingchenggensis by genome sequencing and gene microarray

Genome ◽  
2013 ◽  
Vol 56 (11) ◽  
pp. 677-689 ◽  
Author(s):  
Xiang-Jing Wang ◽  
Bo Zhang ◽  
Yi-Jun Yan ◽  
Jing An ◽  
Ji Zhang ◽  
...  
Keyword(s):  
Natural Products ◽  
Gene Cluster ◽  
Crop Protection ◽  
Gc Content ◽  
Gene Clusters ◽  
High Expression ◽  
Expression Level ◽  
Transcriptional Analysis ◽  
Streptomyces Bingchenggensis ◽  
High Expression Level

Streptomyces bingchenggensis is a soil bacterium that produces milbemycins, a family of macrolide antibiotics that are commercially important in crop protection and veterinary medicine. In addition, S. bingchenggensis produces many other natural products including the polyether nanchangmycin and novel cyclic pentapeptides. To identify the gene clusters involved in the biosynthesis of these compounds, and better clarify the biochemical pathways of these gene clusters, the whole genome of S. bingchenggensis was sequenced, and the transcriptome profile was subsequently investigated by microarray. In comparison with other sequenced genomes in Streptomyces, S. bingchenggensis has the largest linear chromosome consisting of 11 936 683 base pairs (bp), with an average GC content of 70.8%. The 10 023 predicted protein-coding sequences include at least 47 gene clusters correlated with the biosynthesis of known or predicted secondary metabolites. Transcriptional analysis demonstrated an extremely high expression level of the milbemycin gene cluster during the entire growth period and a moderately high expression level of the nanchangmycin gene cluster during the initial hours that subsequently decreased. However, other gene clusters appear to be silent. The genome-wide analysis of the secondary metabolite gene clusters in S. bingchenggensis, coupled with transcriptional analysis, will facilitate the rational development of high milbemycins-producing strains as well as the discovery of new natural products.

Polarity of mutations induced by insertion of transposons Tn5, Tn7 and Tn10 into the nif gene cluster of Klebsiella pneumoniae

1978 ◽  
Vol 165 (1) ◽  
pp. 103-111 ◽  
Author(s):  
Mike Merrick ◽  
Mechthild Filser ◽  
Christina Kennedy ◽  
Ray Dixon
Keyword(s):  
Klebsiella Pneumoniae ◽  
Gene Cluster ◽  
Nif Gene ◽  
Nif Gene Cluster

scholarly journals Rhodococcus opacus expresses the xsc gene to utilize taurine as a carbon source or as a nitrogen source but not as a sulfur source

Microbiology ◽  
2004 ◽  
Vol 150 (6) ◽  
pp. 1859-1867 ◽  
Author(s):  
Karin Denger ◽  
Jürgen Ruff ◽  
David Schleheck ◽  
Alasdair M. Cook
Keyword(s):  
Gene Cluster ◽  
Gene Clusters ◽  
Pcr Primers ◽  
Sole Source ◽  
Amino Acid Sequences ◽  
Rhodococcus Opacus ◽  
Sulfur Source ◽  
Gram Positive Bacteria ◽  
Sulfoacetaldehyde Acetyltransferase ◽  
Different Levels

The Gram-positive bacteria Rhodococcus opacus ISO-5 and Rhodococcus sp. RHA1 utilized taurine (2-aminoethanesulfonate) as the sole source of carbon or of nitrogen or of sulfur for growth. Different gene clusters and enzymes were active under these different metabolic situations. Under carbon- or nitrogen-limited conditions three enzymes were induced, though to different levels: taurine-pyruvate aminotransferase (Tpa), alanine dehydrogenase (Ald) and sulfoacetaldehyde acetyltransferase (Xsc). The specific activities of these enzymes in R. opacus ISO-5 were sufficient to explain the growth rates under the different conditions. These three enzymes were purified and characterized, and the nature of each reaction was confirmed. Analyses of the genome of Rhodococcus sp. RHA1 revealed a gene cluster, tauR-ald-tpa, putatively encoding regulation and oxidation of taurine, located 20 kbp from the xsc gene and separate from two candidate phosphotransacetylase (pta) genes, as well as many candidate ABC transporters (tauBC). PCR primers allowed the amplification and sequencing of the tauR-ald-tpa gene cluster and the xsc gene in R. opacus ISO-5. The N-terminal sequences of the three tested proteins matched the derived amino acid sequences of the corresponding genes. The sequences of the four genes found in each Rhodococcus strain shared high degrees of identity (>95 % identical positions). RT-PCR studies proved transcription of the xsc gene when taurine was the source of carbon or of nitrogen. Under sulfur-limited conditions no xsc mRNA was generated and no Xsc was detected. Taurine dioxygenase (TauD), the enzyme catalysing the anticipated desulfonative reaction when taurine sulfur is assimilated, was presumed to be present because oxygen-dependent taurine disappearance was demonstrated with taurine-grown cells only. A putative tauD gene (with three other candidates) was detected in strain ISO-5. Regulation of the different forms of metabolism of taurine remains to be elucidated.

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