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Cite: NAR/gkaa742 2020



PUL General Information

Literature Information

PUL ID

PUL0264

PubMed

31886414, Commun Biol. 2019 Dec 19;2:474. doi: 10.1038/s42003-019-0721-y. eCollection 2019.

Characterization method

RNA-Seq

Genomic accession number

NZ_SEUH01000010.1

Nucelotide position range

54056-99413

Substrate

carrageenan

Loci

EU511_RS08670-EU511_RS08810

Species

Pseudoalteromonas distincta/77608

Degradation or Biosynthesis

degradation

Gene Name

Locus Tag

Protein ID

Gene Position

GenBank Contig Range

EC Number

- EU511_RS08670 WP_149602720.1 0 - 765 (-) NZ_SEUH01000010.1:54056-54821 -
- EU511_RS08675 WP_149602721.1 870 - 1836 (-) NZ_SEUH01000010.1:54926-55892 -
- EU511_RS08680 WP_149602722.1 1910 - 3104 (-) NZ_SEUH01000010.1:55966-57160 -
- EU511_RS08685 WP_149602723.1 3341 - 4550 (-) NZ_SEUH01000010.1:57397-58606 -
- EU511_RS08690 WP_149602724.1 4810 - 7651 (+) NZ_SEUH01000010.1:58866-61707 -
- EU511_RS08695 WP_149602725.1 7821 - 8559 (+) NZ_SEUH01000010.1:61877-62615 -
- EU511_RS08700 WP_149602753.1 8669 - 9362 (+) NZ_SEUH01000010.1:62725-63418 -
- EU511_RS08705 WP_149602726.1 9450 - 10071 (-) NZ_SEUH01000010.1:63506-64127 4.1.2.21
- EU511_RS08710 WP_149602727.1 10061 - 11069 (-) NZ_SEUH01000010.1:64117-65125 -
- EU511_RS08715 WP_149602728.1 11086 - 12250 (-) NZ_SEUH01000010.1:65142-66306 -
- EU511_RS08720 WP_149602729.1 12260 - 13688 (-) NZ_SEUH01000010.1:66316-67744 -
- EU511_RS08725 WP_149602730.1 13811 - 14795 (-) NZ_SEUH01000010.1:67867-68851 -
- EU511_RS08730 WP_149602731.1 14796 - 15576 (-) NZ_SEUH01000010.1:68852-69632 -
- EU511_RS08735 WP_149602732.1 15587 - 17159 (-) NZ_SEUH01000010.1:69643-71215 -
- EU511_RS08740 WP_149602733.1 17353 - 18229 (-) NZ_SEUH01000010.1:71409-72285 -
- EU511_RS08745 WP_149602734.1 18246 - 19410 (-) NZ_SEUH01000010.1:72302-73466 -
- EU511_RS08750 WP_149602735.1 19429 - 20851 (-) NZ_SEUH01000010.1:73485-74907 -
- EU511_RS08755 WP_149602736.1 21195 - 23331 (+) NZ_SEUH01000010.1:75251-77387 -
- EU511_RS08760 WP_149602737.1 23676 - 26217 (+) NZ_SEUH01000010.1:77732-80273 -
- EU511_RS08765 WP_149602738.1 26295 - 28215 (-) NZ_SEUH01000010.1:80351-82271 -
- EU511_RS08770 WP_149602739.1 28226 - 29270 (-) NZ_SEUH01000010.1:82282-83326 -
- EU511_RS08775 WP_149592181.1 29589 - 31377 (-) NZ_SEUH01000010.1:83645-85433 -
- EU511_RS08780 WP_149602740.1 31439 - 35150 (-) NZ_SEUH01000010.1:85495-89206 -
- EU511_RS08785 WP_149602741.1 35731 - 36862 (-) NZ_SEUH01000010.1:89787-90918 -
- EU511_RS08790 WP_149602742.1 36969 - 38841 (-) NZ_SEUH01000010.1:91025-92897 -
- EU511_RS08795 WP_149602743.1 38866 - 40309 (-) NZ_SEUH01000010.1:92922-94365 -
- EU511_RS08800 WP_149602744.1 40378 - 41902 (-) NZ_SEUH01000010.1:94434-95958 -
- EU511_RS08805 WP_149602745.1 42149 - 42707 (-) NZ_SEUH01000010.1:96205-96763 -
- EU511_RS08810 WP_149602746.1 42922 - 45358 (-) NZ_SEUH01000010.1:96978-99414 -

Cluster number

1

Gene name

Gene position

Gene type

Found by CGCFinder?

- 1 - 765 (-) CDS No
- 871 - 1836 (-) CDS No
- 1911 - 3104 (-) CAZyme: GH16 Yes
- 3342 - 4550 (-) STP: STP|HTH_18 Yes
- 4811 - 7651 (+) TC: gnl|TC-DB|Q9AAZ6|1.B.14.12.2 Yes
- 7822 - 8559 (+) STP: STP|GntR Yes
- 8670 - 9362 (+) STP: STP|GntR Yes
- 9451 - 10071 (-) other Yes
- 10062 - 11069 (-) other Yes
- 11087 - 12250 (-) other Yes
- 12261 - 13688 (-) other Yes
- 13812 - 14795 (-) other Yes
- 14797 - 15576 (-) other Yes
- 15588 - 17159 (-) TC: gnl|TC-DB|P96710|2.A.1.1.55 Yes
- 17354 - 18229 (-) other Yes
- 18247 - 19410 (-) other Yes
- 19430 - 20851 (-) other Yes
- 21196 - 23331 (+) other Yes
- 23677 - 26217 (+) other Yes
- 26296 - 28215 (-) other Yes
- 28227 - 29270 (-) CAZyme: GH16 Yes
- 29590 - 31377 (-) CDS No
- 31440 - 35150 (-) CDS No
- 35732 - 36862 (-) CDS No
- 36970 - 38841 (-) CDS No
- 38867 - 40309 (-) CDS No
- 40379 - 41902 (-) CDS No
- 42150 - 42707 (-) CDS No
- 42923 - 45358 (-) CDS No

PUL ID

PUL0264

PubMed

31886414, Commun Biol. 2019 Dec 19;2:474. doi: 10.1038/s42003-019-0721-y. eCollection 2019.

Title

Insights into the kappa/iota-carrageenan metabolism pathway of some marine Pseudoalteromonas species.

Author

Hettle AG, Hobbs JK, Pluvinage B, Vickers C, Abe KT, Salama-Alber O, McGuire BE, Hehemann JH, Hui JPM, Berrue F, Banskota A, Zhang J, Bottos EM, Van Hamme J, Boraston AB

Abstract

Pseudoalteromonas is a globally distributed marine-associated genus that can be found in a broad range of aquatic environments, including in association with macroalgal surfaces where they may take advantage of these rich sources of polysaccharides. The metabolic systems that confer the ability to metabolize this abundant form of photosynthetically fixed carbon, however, are not yet fully understood. Through genomics, transcriptomics, microbiology, and specific structure-function studies of pathway components we address the capacity of newly isolated marine pseudoalteromonads to metabolize the red algal galactan carrageenan. The results reveal that the kappa/iota-carrageenan specific polysaccharide utilization locus (CarPUL) enables isolates possessing this locus the ability to grow on this substrate. Biochemical and structural analysis of the enzymatic components of the CarPUL promoted the development of a detailed model of the kappa/iota-carrageenan metabolic pathway deployed by pseudoalteromonads, thus furthering our understanding of how these microbes have adapted to a unique environmental niche.