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dbCAN-seq specifications

Information


Unique identifier OMICS_22258
Name dbCAN-seq
Restrictions to use None
Database management system MySQL
Community driven No
Data access Browse
User data submission Not allowed
Maintained Yes

Subtool


  • CAZyme gene clusters

Maintainers


  • person_outline Han Zhang
  • person_outline Yanbin Yin

Publication for dbCAN-seq

dbCAN-seq citations

 (4)
library_books

Trichoderma reesei complete genome sequence, repeat induced point mutation, and partitioning of CAZyme gene clusters

2017
Biotechnol Biofuels
PMCID: 5496416
PMID: 28690679
DOI: 10.1186/s13068-017-0825-x

[…] 151 (not 9194) predicted genes. A third of the putative CAZyme genes occurred in loose clusters that also contained a high number of genes encoding small-secreted cysteine-rich proteins (SSCPs). Five CAZyme gene clusters are located close to chromosomal ends. These subtelomeric areas are also enriched in genes involved in conidiation, iron scavenging, and interactions with other fungi, such as sec […]

library_books

Genome wide transcriptomic analysis of a superior biomass degrading strain of A. fumigatus revealed active lignocellulose degrading genes

2015
BMC Genomics
PMCID: 4469458
PMID: 26076650
DOI: 10.1186/s12864-015-1658-2

[…] The gene families were collected by visual inspection using CIRCOS software [] (http://www.circos.ca). For CAZyme gene clusters, a cluster is defined as a region containing a statistically higher proportion of a particular gene family, and the cluster must begin and end with a gene from the family studied. […]

library_books

Trichoderma reesei meiosis generates segmentally aneuploid progeny with higher xylanase producing capability

2015
Biotechnol Biofuels
PMCID: 4344761
PMID: 25729429
DOI: 10.1186/s13068-015-0202-6

[…] e hydrolases that contribute to the degradation of lignocelluloses and plant cell walls. Previous transcriptomic studies also indicated that adjacent or nearly adjacent genes were coexpressed in four CAZyme gene clusters located in scaffolds 1, 6, 28, and 29 []. Notably, the CAZyme gene cluster in scaffold 28 is located at the D segment (Additional file : Table S2), including an endo-β-1,4-xylanas […]

library_books

The putative protein methyltransferase LAE1 controls cellulase gene expression in Trichoderma reesei

2012
Mol Microbiol
PMCID: 3370264
PMID: 22554051
DOI: 10.1111/j.1365-2958.2012.08083.x

[…] -chains in hemicelluloses. The reduction of expression of various glycosidase genes was also reflected in the decreased ability to grow on several of their di- or oligosaccharide substrates ().The 25 CAZyme gene clusters in the T. reesei genome contain an average fivefold increase in CAZyme gene density compared with the expected density for randomly distributed genes (). In total, 126 of the appr […]


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dbCAN-seq institution(s)
College of Computer and Control Engineering, Nankai University, Tianjin, China; Department of Biological Sciences, Northern Illinois University, DeKalb, IL, USA; Department of Computer Science, Northern Illinois University, DeKalb, IL, USA
dbCAN-seq funding source(s)
Supported by National Science Foundation (NSF) CAREER award [DBI-1652164], National Institutes of Health (NIH) AREA award [1R15GM114706], Research & Artistry Award of the NIU [2016-YIN]; and National Natural Science Foundation of China [31728013] (in part).

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