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Cite: NAR/gkaa742 2020



PUL General Information

Literature Information

PUL ID

PUL0014

PubMed

28900693, Curr Microbiol. 2018 Jan;75(1):49-56. doi: 10.1007/s00284-017-1349-0. Epub 2017 Sep 12.

Characterization method

sequence homology analysis,growth assay

Genomic accession number

NZ_CP020030.1

Nucelotide position range

2035523-2046640

Substrate

pectin

Loci

GTHT12_RS10165-GTHT12_RS10205

Species

Geobacillus thermodenitrificans/33940

Degradation or Biosynthesis

degradation

Gene Name

Locus Tag

Protein ID

Gene Position

GenBank Contig Range

EC Number

kduI GTHT12_RS10165 WP_060475675.1 0 - 831 (-) NZ_CP020030.1:2035523-2036354 5.3.1.17
kduD GTHT12_RS10170 WP_060475677.1 864 - 1620 (-) NZ_CP020030.1:2036387-2037143 1.1.1.127
- GTHT12_RS10175 WP_060475676.1 1750 - 2512 (-) NZ_CP020030.1:2037273-2038035 -
- GTHT12_RS10180 WP_087960078.1 2887 - 4099 (-) NZ_CP020030.1:2038410-2039622 -
- GTHT12_RS10185 WP_060475608.1 4122 - 5919 (-) NZ_CP020030.1:2039645-2041442 -
- GTHT12_RS10190 WP_087960079.1 6233 - 7559 (-) NZ_CP020030.1:2041756-2043082 -
- GTHT12_RS10195 WP_060475610.1 7555 - 8686 (-) NZ_CP020030.1:2043078-2044209 -
- GTHT12_RS10200 WP_087960377.1 8926 - 10249 (-) NZ_CP020030.1:2044449-2045772 -
- GTHT12_RS10205 WP_060475618.1 10293 - 11118 (-) NZ_CP020030.1:2045816-2046641 -

Cluster number

1

Gene name

Gene position

Gene type

Found by CGCFinder?

kduI 1 - 831 (-) CDS No
kduD 865 - 1620 (-) CDS No
- 1751 - 2512 (-) TF: DBD-Pfam|HTH_DeoR,DBD-SUPERFAMILY|0043758 No
- 2888 - 4099 (-) TF: DBD-Pfam|HTH_AraC,DBD-Pfam|HTH_AraC,DBD-SUPERFAMILY|0036286,DBD-SUPERFAMILY|0035607 No
- 4123 - 5919 (-) TC: gnl|TC-DB|F4LXP4|8.A.59.2.1 Yes
- 6234 - 7559 (-) CAZyme: PL1_6|PL1 Yes
- 7556 - 8686 (-) CAZyme: GH105 Yes
- 8927 - 10249 (-) STP: STP|SBP_bac_1 Yes
- 10294 - 11118 (-) TC: gnl|TC-DB|G4FGN6|3.A.1.1.41 Yes

PUL ID

PUL0014

PubMed

28900693, Curr Microbiol. 2018 Jan;75(1):49-56. doi: 10.1007/s00284-017-1349-0. Epub 2017 Sep 12.

Title

Complete Genome Sequence of Geobacillus thermodenitrificans T12, A Potential Host for Biotechnological Applications.

Author

Daas MJA, Vriesendorp B, van de Weijer AHP, van der Oost J, van Kranenburg R

Abstract

In attempt to obtain a thermophilic host for the conversion of lignocellulose derived substrates into lactic acid, Geobacillus thermodenitrificans T12 was isolated from a compost heap. It was selected from over 500 isolates as a genetically tractable hemicellulolytic lactic acid producer, requiring little nutrients. The strain is able to ferment glucose and xylose simultaneously and can produce lactic acid from xylan, making it a potential host for biotechnological applications. The genome of strain T12 consists of a 3.64 Mb chromosome and two plasmids of 59 and 56 kb. It has a total of 3.676 genes with an average genomic GC content of 48.7%. The T12 genome encodes a denitrification pathway, allowing for anaerobic respiration. The identity and localization of the responsible genes are similar to those of the denitrification pathways found in strain NG80-2. The hemicellulose utilization (HUS) locus was identified based on sequence homology against G. stearothermophilus T-6. It appeared that T12 has all the genes that are present in strain T-6 except for the arabinan degradation cluster. Instead, the HUS locus of strain T12 contains genes for both an inositol and a pectate degradation pathway. Strain T12 has complete pathways for the synthesis of purine and pyrimidine, all 20 amino acids and several vitamins except D-biotin. The host-defense systems present comprise a Type II and a Type III restriction-modification system, as well as a CRISPR-Cas Type II system. It is concluded that G. thermodenitrificans T12 is a potentially interesting candidate for industrial applications.