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Genome sequence of a native-feather degrading extremely thermophilic Eubacterium, Fervidobacterium islandicum AW-1.

Lee YJ, Jeong H, Park GS, Kwak Y, Lee SJ, Lee SJ, Park MK, Kim JY, Kang HK, Shin JH, Lee DW - Stand Genomic Sci (2015)

Bottom Line: However, its genomic and phylogenetic analysis remains unclear.The genome consists of 2,359,755 bp, which encodes 2,184 protein-coding genes and 64 RNA-encoding genes.This may reveal insights into anaerobic metabolism for keratin degradation and also provide a biological option for poultry waste treatments.

View Article: PubMed Central - PubMed

Affiliation: School of Applied Biosciences, Kyungpook National University, Daegu, Korea.

ABSTRACT
Fervidobacterium islandicum AW-1 (KCTC 4680) is an extremely thermophilic anaerobe isolated from a hot spring in Indonesia. This bacterium could degrade native chicken feathers completely at 70 °C within 48 h, which is of potential importance on the basis of relevant environmental and agricultural issues in bioremediation and development of eco-friendly bioprocesses for the treatment of native feathers. However, its genomic and phylogenetic analysis remains unclear. Here, we report the high-quality draft genome sequence of an extremely thermophilic anaerobe, F. islandicum AW-1. The genome consists of 2,359,755 bp, which encodes 2,184 protein-coding genes and 64 RNA-encoding genes. This may reveal insights into anaerobic metabolism for keratin degradation and also provide a biological option for poultry waste treatments.

No MeSH data available.


Overview of the microbial pathways on the KEGG pathways using the iPath. Metabolic pathways found in the context of F. islandicum AW-1 (top panel) and F. nodosum Rt17-B1 (bottom panel) genomes are shown in red and blue, respectively. Hypothetical proteins found are excluded
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Fig4: Overview of the microbial pathways on the KEGG pathways using the iPath. Metabolic pathways found in the context of F. islandicum AW-1 (top panel) and F. nodosum Rt17-B1 (bottom panel) genomes are shown in red and blue, respectively. Hypothetical proteins found are excluded

Mentions: As described above, the 16S rRNA gene sequence of F. islandicum AW-1 showed the high similarity to those of F. changbaicumCBS-1, and F. islandicum H-21. On the other hand, RAST analysis demonstrated that F. nodosum Rt17-B1 was actually F. islandicum AW-1's closest neighbor. Consequently, genome analysis found genes involved in protein metabolism including protein degradation systems with 25 different types of proteases. For example, protein-coding genes annotated as carboxyl-terminal protease (EC 3.4.21.102) and lipoprotein signal peptidase (EC 3.4.23.36) were found in F. islandicum AW-1, but not in F. nodosum Rt17-B1. We also found several genes encoding cysteine desulfurase and thioredoxin-disulfide reductase as potential candidates for feather degradation. In addition, several reductases and peptidases (e.g., disulfide reductase, thioredoxin, and carboxy-peptidases) of F. islandicum AW-1 showed relatively low levels of sequence identity (less than 50 %) to those of F. nodosum Rt17-B1. In addition, F. islandicum AW-1 seems to have several distinct enzymes involved in amino-sugars (chitin and N-acetylglucosamine) utilization and sugar alcohols (glycerol and glycerol-3-phosphate) metabolism, which are not found in F. nodosum Rt17-B1 (Fig. 4). Notably, comparative analysis of the F. islandicum AW-1 and F. nodosum RT17-B1 genomes revealed that the former seems to have several distinct enzymes involved in fatty acid degradation, aromatic compound degradation, and alpha-linolenic acid metabolism not found in the latter. Fig. 4


Genome sequence of a native-feather degrading extremely thermophilic Eubacterium, Fervidobacterium islandicum AW-1.

Lee YJ, Jeong H, Park GS, Kwak Y, Lee SJ, Lee SJ, Park MK, Kim JY, Kang HK, Shin JH, Lee DW - Stand Genomic Sci (2015)

Overview of the microbial pathways on the KEGG pathways using the iPath. Metabolic pathways found in the context of F. islandicum AW-1 (top panel) and F. nodosum Rt17-B1 (bottom panel) genomes are shown in red and blue, respectively. Hypothetical proteins found are excluded
© Copyright Policy - OpenAccess
Related In: Results  -  Collection

License 1 - License 2
Show All Figures
getmorefigures.php?uid=PMC4587914&req=5

Fig4: Overview of the microbial pathways on the KEGG pathways using the iPath. Metabolic pathways found in the context of F. islandicum AW-1 (top panel) and F. nodosum Rt17-B1 (bottom panel) genomes are shown in red and blue, respectively. Hypothetical proteins found are excluded
Mentions: As described above, the 16S rRNA gene sequence of F. islandicum AW-1 showed the high similarity to those of F. changbaicumCBS-1, and F. islandicum H-21. On the other hand, RAST analysis demonstrated that F. nodosum Rt17-B1 was actually F. islandicum AW-1's closest neighbor. Consequently, genome analysis found genes involved in protein metabolism including protein degradation systems with 25 different types of proteases. For example, protein-coding genes annotated as carboxyl-terminal protease (EC 3.4.21.102) and lipoprotein signal peptidase (EC 3.4.23.36) were found in F. islandicum AW-1, but not in F. nodosum Rt17-B1. We also found several genes encoding cysteine desulfurase and thioredoxin-disulfide reductase as potential candidates for feather degradation. In addition, several reductases and peptidases (e.g., disulfide reductase, thioredoxin, and carboxy-peptidases) of F. islandicum AW-1 showed relatively low levels of sequence identity (less than 50 %) to those of F. nodosum Rt17-B1. In addition, F. islandicum AW-1 seems to have several distinct enzymes involved in amino-sugars (chitin and N-acetylglucosamine) utilization and sugar alcohols (glycerol and glycerol-3-phosphate) metabolism, which are not found in F. nodosum Rt17-B1 (Fig. 4). Notably, comparative analysis of the F. islandicum AW-1 and F. nodosum RT17-B1 genomes revealed that the former seems to have several distinct enzymes involved in fatty acid degradation, aromatic compound degradation, and alpha-linolenic acid metabolism not found in the latter. Fig. 4

Bottom Line: However, its genomic and phylogenetic analysis remains unclear.The genome consists of 2,359,755 bp, which encodes 2,184 protein-coding genes and 64 RNA-encoding genes.This may reveal insights into anaerobic metabolism for keratin degradation and also provide a biological option for poultry waste treatments.

View Article: PubMed Central - PubMed

Affiliation: School of Applied Biosciences, Kyungpook National University, Daegu, Korea.

ABSTRACT
Fervidobacterium islandicum AW-1 (KCTC 4680) is an extremely thermophilic anaerobe isolated from a hot spring in Indonesia. This bacterium could degrade native chicken feathers completely at 70 °C within 48 h, which is of potential importance on the basis of relevant environmental and agricultural issues in bioremediation and development of eco-friendly bioprocesses for the treatment of native feathers. However, its genomic and phylogenetic analysis remains unclear. Here, we report the high-quality draft genome sequence of an extremely thermophilic anaerobe, F. islandicum AW-1. The genome consists of 2,359,755 bp, which encodes 2,184 protein-coding genes and 64 RNA-encoding genes. This may reveal insights into anaerobic metabolism for keratin degradation and also provide a biological option for poultry waste treatments.

No MeSH data available.