Transport genes and chemotaxis in <it>Laribacter hongkongensis</it>: a genome-wide analysis
<p>Abstract</p> <p>Background</p> <p><it>Laribacter hongkongensis </it>is a Gram-negative, sea gull-shaped rod associated with community-acquired gastroenteritis. The bacterium has been found in diverse freshwater environments including fish, frogs and drink...
| Main Authors: | , , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
BMC
2011-08-01
|
| Series: | Cell & Bioscience |
| Online Access: | http://www.cellandbioscience.com/content/1/1/28 |
| _version_ | 1819027949516488704 |
|---|---|
| author | Lau Susanna KP Fan Rachel YY Wong Gilman KM Teng Jade LL Sze Kong-Hung Tse Herman Yuen Kwok-Yung Woo Patrick CY |
| author_facet | Lau Susanna KP Fan Rachel YY Wong Gilman KM Teng Jade LL Sze Kong-Hung Tse Herman Yuen Kwok-Yung Woo Patrick CY |
| author_sort | Lau Susanna KP |
| collection | DOAJ |
| description | <p>Abstract</p> <p>Background</p> <p><it>Laribacter hongkongensis </it>is a Gram-negative, sea gull-shaped rod associated with community-acquired gastroenteritis. The bacterium has been found in diverse freshwater environments including fish, frogs and drinking water reservoirs. Using the complete genome sequence data of <it>L. hongkongensis</it>, we performed a comprehensive analysis of putative transport-related genes and genes related to chemotaxis, motility and quorum sensing, which may help the bacterium adapt to the changing environments and combat harmful substances.</p> <p>Results</p> <p>A genome-wide analysis using Transport Classification Database TCDB, similarity and keyword searches revealed the presence of a large diversity of transporters (n = 457) and genes related to chemotaxis (n = 52) and flagellar biosynthesis (n = 40) in the <it>L. hongkongensis </it>genome. The transporters included those from all seven major transporter categories, which may allow the uptake of essential nutrients or ions, and extrusion of metabolic end products and hazardous substances. <it>L. hongkongensis </it>is unique among closely related members of <it>Neisseriaceae </it>family in possessing higher number of proteins related to transport of ammonium, urea and dicarboxylate, which may reflect the importance of nitrogen and dicarboxylate metabolism in this assacharolytic bacterium. Structural modeling of two C<sup><sub>4</sub></sup>-dicarboxylate transporters showed that they possessed similar structures to the determined structures of other DctP-TRAP transporters, with one having an unusual disulfide bond. Diverse mechanisms for iron transport, including hemin transporters for iron acquisition from host proteins, were also identified. In addition to the chemotaxis and flagella-related genes, the <it>L. hongkongensis </it>genome also contained two copies of <it>qseB/qseC </it>homologues of the AI-3 quorum sensing system.</p> <p>Conclusions</p> <p>The large number of diverse transporters and genes involved in chemotaxis, motility and quorum sensing suggested that the bacterium may utilize a complex system to adapt to different environments. Structural modeling will provide useful insights on the transporters in <it>L. hongkongensis</it>.</p> |
| first_indexed | 2024-12-21T05:50:36Z |
| format | Article |
| id | doaj.art-619167515c2e435587a7a419d2502a2c |
| institution | Directory Open Access Journal |
| issn | 2045-3701 |
| language | English |
| last_indexed | 2024-12-21T05:50:36Z |
| publishDate | 2011-08-01 |
| publisher | BMC |
| record_format | Article |
| series | Cell & Bioscience |
| spelling | doaj.art-619167515c2e435587a7a419d2502a2c2022-12-21T19:13:59ZengBMCCell & Bioscience2045-37012011-08-01112810.1186/2045-3701-1-28Transport genes and chemotaxis in <it>Laribacter hongkongensis</it>: a genome-wide analysisLau Susanna KPFan Rachel YYWong Gilman KMTeng Jade LLSze Kong-HungTse HermanYuen Kwok-YungWoo Patrick CY<p>Abstract</p> <p>Background</p> <p><it>Laribacter hongkongensis </it>is a Gram-negative, sea gull-shaped rod associated with community-acquired gastroenteritis. The bacterium has been found in diverse freshwater environments including fish, frogs and drinking water reservoirs. Using the complete genome sequence data of <it>L. hongkongensis</it>, we performed a comprehensive analysis of putative transport-related genes and genes related to chemotaxis, motility and quorum sensing, which may help the bacterium adapt to the changing environments and combat harmful substances.</p> <p>Results</p> <p>A genome-wide analysis using Transport Classification Database TCDB, similarity and keyword searches revealed the presence of a large diversity of transporters (n = 457) and genes related to chemotaxis (n = 52) and flagellar biosynthesis (n = 40) in the <it>L. hongkongensis </it>genome. The transporters included those from all seven major transporter categories, which may allow the uptake of essential nutrients or ions, and extrusion of metabolic end products and hazardous substances. <it>L. hongkongensis </it>is unique among closely related members of <it>Neisseriaceae </it>family in possessing higher number of proteins related to transport of ammonium, urea and dicarboxylate, which may reflect the importance of nitrogen and dicarboxylate metabolism in this assacharolytic bacterium. Structural modeling of two C<sup><sub>4</sub></sup>-dicarboxylate transporters showed that they possessed similar structures to the determined structures of other DctP-TRAP transporters, with one having an unusual disulfide bond. Diverse mechanisms for iron transport, including hemin transporters for iron acquisition from host proteins, were also identified. In addition to the chemotaxis and flagella-related genes, the <it>L. hongkongensis </it>genome also contained two copies of <it>qseB/qseC </it>homologues of the AI-3 quorum sensing system.</p> <p>Conclusions</p> <p>The large number of diverse transporters and genes involved in chemotaxis, motility and quorum sensing suggested that the bacterium may utilize a complex system to adapt to different environments. Structural modeling will provide useful insights on the transporters in <it>L. hongkongensis</it>.</p>http://www.cellandbioscience.com/content/1/1/28 |
| spellingShingle | Lau Susanna KP Fan Rachel YY Wong Gilman KM Teng Jade LL Sze Kong-Hung Tse Herman Yuen Kwok-Yung Woo Patrick CY Transport genes and chemotaxis in <it>Laribacter hongkongensis</it>: a genome-wide analysis Cell & Bioscience |
| title | Transport genes and chemotaxis in <it>Laribacter hongkongensis</it>: a genome-wide analysis |
| title_full | Transport genes and chemotaxis in <it>Laribacter hongkongensis</it>: a genome-wide analysis |
| title_fullStr | Transport genes and chemotaxis in <it>Laribacter hongkongensis</it>: a genome-wide analysis |
| title_full_unstemmed | Transport genes and chemotaxis in <it>Laribacter hongkongensis</it>: a genome-wide analysis |
| title_short | Transport genes and chemotaxis in <it>Laribacter hongkongensis</it>: a genome-wide analysis |
| title_sort | transport genes and chemotaxis in it laribacter hongkongensis it a genome wide analysis |
| url | http://www.cellandbioscience.com/content/1/1/28 |
| work_keys_str_mv | AT laususannakp transportgenesandchemotaxisinitlaribacterhongkongensisitagenomewideanalysis AT fanrachelyy transportgenesandchemotaxisinitlaribacterhongkongensisitagenomewideanalysis AT wonggilmankm transportgenesandchemotaxisinitlaribacterhongkongensisitagenomewideanalysis AT tengjadell transportgenesandchemotaxisinitlaribacterhongkongensisitagenomewideanalysis AT szekonghung transportgenesandchemotaxisinitlaribacterhongkongensisitagenomewideanalysis AT tseherman transportgenesandchemotaxisinitlaribacterhongkongensisitagenomewideanalysis AT yuenkwokyung transportgenesandchemotaxisinitlaribacterhongkongensisitagenomewideanalysis AT woopatrickcy transportgenesandchemotaxisinitlaribacterhongkongensisitagenomewideanalysis |