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Complete Genome Sequence of Clostridium clariflavum DSM 19732.

Izquierdo JA, Goodwin L, Davenport KW, Teshima H, Bruce D, Detter C, Tapia R, Han S, Land M, Hauser L, Jeffries CD, Han J, Pitluck S, Nolan M, Chen A, Huntemann M, Mavromatis K, Mikhailova N, Liolios K, Woyke T, Lynd LR - Stand Genomic Sci (2012)

Bottom Line: Clostridium clariflavum is a Cluster III Clostridium within the family Clostridiaceae isolated from thermophilic anaerobic sludge (Shiratori et al, 2009).This species is of interest because of its similarity to the model cellulolytic organism Clostridium thermocellum and for the ability of environmental isolates to break down cellulose and hemicellulose.Here we describe features of the 4,897,678 bp long genome and its annotation, consisting of 4,131 protein-coding and 98 RNA genes, for the type strain DSM 19732.

View Article: PubMed Central - PubMed

ABSTRACT
Clostridium clariflavum is a Cluster III Clostridium within the family Clostridiaceae isolated from thermophilic anaerobic sludge (Shiratori et al, 2009). This species is of interest because of its similarity to the model cellulolytic organism Clostridium thermocellum and for the ability of environmental isolates to break down cellulose and hemicellulose. Here we describe features of the 4,897,678 bp long genome and its annotation, consisting of 4,131 protein-coding and 98 RNA genes, for the type strain DSM 19732.

No MeSH data available.


Related in: MedlinePlus

Phylogenetic tree of 16S rRNA gene highlighting the position of Clostridium clariflavum DSM 19732 relative to other clostridia in Cluster III. This tree was inferred from 1,401 aligned characters using the Minimum Evolution criterion [5] and rooted using C. cellulosi (from adjacent clostridial Cluster IV). Numbers above branches are support values from 1,000 bootstrap replicates [6] if larger than 60%.
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f1: Phylogenetic tree of 16S rRNA gene highlighting the position of Clostridium clariflavum DSM 19732 relative to other clostridia in Cluster III. This tree was inferred from 1,401 aligned characters using the Minimum Evolution criterion [5] and rooted using C. cellulosi (from adjacent clostridial Cluster IV). Numbers above branches are support values from 1,000 bootstrap replicates [6] if larger than 60%.

Mentions: The phylogenetic relationship of the 16S rRNA gene of C. clariflavum DSM 19732 with other cellulolytic clostridia from Cluster III is shown in Figure 1. The sequences shown in here represent mostly cellulolytic and xylanotlytic clostridia sharing over 84.5% sequence identity. The branch comprised by C. clariflavum, C. straminisolvens and C. thermocellum is of particular interest since it includes cellulolytic organisms sharing at least 96.6% sequence homology able to grow at thermophilic temperatures. A few environmental samples have provided sequences with close homology (>99.0% sequence similarity) to the C. clariflavum 16S rRNA gene, and have been found in thermophilic methanogenic bioreactors [7], enrichment cultures from bioreactors (Accession number AB231801 and AM408567), and enrichments from thermophilic compost [3]. Two pure cultures have been isolated from compost enrichments with >99.7% sequence similarity to C. clariflavum and able to utilize xylan [4]. However, no evidence of this organism has been reported in metagenomic studies from similar environments.


Complete Genome Sequence of Clostridium clariflavum DSM 19732.

Izquierdo JA, Goodwin L, Davenport KW, Teshima H, Bruce D, Detter C, Tapia R, Han S, Land M, Hauser L, Jeffries CD, Han J, Pitluck S, Nolan M, Chen A, Huntemann M, Mavromatis K, Mikhailova N, Liolios K, Woyke T, Lynd LR - Stand Genomic Sci (2012)

Phylogenetic tree of 16S rRNA gene highlighting the position of Clostridium clariflavum DSM 19732 relative to other clostridia in Cluster III. This tree was inferred from 1,401 aligned characters using the Minimum Evolution criterion [5] and rooted using C. cellulosi (from adjacent clostridial Cluster IV). Numbers above branches are support values from 1,000 bootstrap replicates [6] if larger than 60%.
© Copyright Policy
Related In: Results  -  Collection

Show All Figures
getmorefigures.php?uid=PMC3368404&req=5

f1: Phylogenetic tree of 16S rRNA gene highlighting the position of Clostridium clariflavum DSM 19732 relative to other clostridia in Cluster III. This tree was inferred from 1,401 aligned characters using the Minimum Evolution criterion [5] and rooted using C. cellulosi (from adjacent clostridial Cluster IV). Numbers above branches are support values from 1,000 bootstrap replicates [6] if larger than 60%.
Mentions: The phylogenetic relationship of the 16S rRNA gene of C. clariflavum DSM 19732 with other cellulolytic clostridia from Cluster III is shown in Figure 1. The sequences shown in here represent mostly cellulolytic and xylanotlytic clostridia sharing over 84.5% sequence identity. The branch comprised by C. clariflavum, C. straminisolvens and C. thermocellum is of particular interest since it includes cellulolytic organisms sharing at least 96.6% sequence homology able to grow at thermophilic temperatures. A few environmental samples have provided sequences with close homology (>99.0% sequence similarity) to the C. clariflavum 16S rRNA gene, and have been found in thermophilic methanogenic bioreactors [7], enrichment cultures from bioreactors (Accession number AB231801 and AM408567), and enrichments from thermophilic compost [3]. Two pure cultures have been isolated from compost enrichments with >99.7% sequence similarity to C. clariflavum and able to utilize xylan [4]. However, no evidence of this organism has been reported in metagenomic studies from similar environments.

Bottom Line: Clostridium clariflavum is a Cluster III Clostridium within the family Clostridiaceae isolated from thermophilic anaerobic sludge (Shiratori et al, 2009).This species is of interest because of its similarity to the model cellulolytic organism Clostridium thermocellum and for the ability of environmental isolates to break down cellulose and hemicellulose.Here we describe features of the 4,897,678 bp long genome and its annotation, consisting of 4,131 protein-coding and 98 RNA genes, for the type strain DSM 19732.

View Article: PubMed Central - PubMed

ABSTRACT
Clostridium clariflavum is a Cluster III Clostridium within the family Clostridiaceae isolated from thermophilic anaerobic sludge (Shiratori et al, 2009). This species is of interest because of its similarity to the model cellulolytic organism Clostridium thermocellum and for the ability of environmental isolates to break down cellulose and hemicellulose. Here we describe features of the 4,897,678 bp long genome and its annotation, consisting of 4,131 protein-coding and 98 RNA genes, for the type strain DSM 19732.

No MeSH data available.


Related in: MedlinePlus