Agrobacteria-Rhizobia Complex

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start [2023/05/12 09:43] – 172.20.55.153start [2023/05/18 08:59] (current) – [About] chk
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 ===== About ===== ===== About =====
   * Agrobacteria-rhizobia complex (ARC) is a diverse group of plant-associated bacteria in the family [[https://lpsn.dsmz.de/family/rhizobiaceae|Rhizobiaceae]]. This website is created to provide curated information about these bacteria.   * Agrobacteria-rhizobia complex (ARC) is a diverse group of plant-associated bacteria in the family [[https://lpsn.dsmz.de/family/rhizobiaceae|Rhizobiaceae]]. This website is created to provide curated information about these bacteria.
 +    * Based on the expertise of current [[contributors|contributors]], the site is more focused on agrobacteria.
   * Names ([[https://doi.org/10.1099/ijsem.0.003426]])   * Names ([[https://doi.org/10.1099/ijsem.0.003426]])
-    * Agrobacteria+    * Agrobacteria (common name, not italicized)
       * Bacteria that cause (or potentially may cause) crown gall or hairy root disease       * Bacteria that cause (or potentially may cause) crown gall or hairy root disease
       * Have (or can have) tumor-inducing plasmids (pTi)       * Have (or can have) tumor-inducing plasmids (pTi)
       * A polyphyletic and heterogeneous group that include many species belonging to several different genera (e.g., //Agrobacterium//, //Allorhizobium//, //Rhizobium//)       * A polyphyletic and heterogeneous group that include many species belonging to several different genera (e.g., //Agrobacterium//, //Allorhizobium//, //Rhizobium//)
-    * Rhizobia+    * Rhizobia (common name, not italicized)
       * Bacteria that induce nodule formation on a legume host and perform nitrogen fixation       * Bacteria that induce nodule formation on a legume host and perform nitrogen fixation
 +      * The nitrogen fixation function is often associated with symbiotic plasmids (pSym)
 +      * A polyphyletic and heterogeneous group that include many species belonging to several different genera (e.g., //Rhizobium//, //Neorhizobium//)
 +    * //Agrobacterium// and //Rhizobium// (genus names, always italicized and capitalized)
 +      * The meaning and the corresponding biological entities changed multiple times according to taxonomy revisions; often misused
  
-===== Taxonomy ===== 
-  * Biovars 
-    * BV1: the //Agrobacterium tumefaciens// species complex, divided into multiple genomnospecies (G?), some have Latin names: 
  
-^Genomnospecies  ^Species Name  ^Representative Strains  ^Note  ^ 
-|G1  |//Agrobacterium fabacearum//  |Ach5, 1D1108  |[[https://lpsn.dsmz.de/species/agrobacterium-fabacearum|LPSN]]  | 
  
- 
-      * G2: //Agrobacterium pusense// (//Rhizobium pusense// in NCBI); CFBP 5875.  
-      * G3: //Agrobacterium tomkonis// 
-      * G4: //Agrobacterium radiobacter//; 1D1460 
-      * G7: //Agrobacterium deltaense//; 1D1609 
-      * G8: //Agrobacterium fabrum//; C58 
-      * G9: //Agrobacterium salinitolerans// 
-      * G14: //Agrobacterium nepotum// 
-      * G15: //Agrobacterium viscosum// 
-      * G19: //Agrobacterium burrii//; [[https://doi.org/10.1094/PHYTO-11-21-0463-SC]] 
-      * G20: //Agrobacterium shirazense//; [[https://doi.org/10.1094/PHYTO-11-21-0463-SC]] 
-      * //Agrobacterium arsenijevicii//; no genomnospecies assignment, sister of //Agrobacterium nepotum//; [[https://doi.org/10.1016/j.syapm.2015.06.001]] 
-      * //Agrobacterium leguminum//; no genomnospecies assignment, sister of //Agrobacterium deltaense//; [[https://doi.org/10.1099/ijsem.0.005120]] 
-    * BV1-like: sister group of BV1 
-      * //Agrobacterium bohemicum// 
-      * //Agrobacterium larrymoorei// 
-      * //Agrobacterium rosae// 
-      * //Agrobacterium rubi// 
-      * //Agrobacterium skierniewicense// 
-      * //Agrobacterium vaccinii// 
-    * BV2: current name = //Rhizobium rhizogenes// 
-    * BV3: previously //Agrobacterium vitis//, now //Allorhizobium// spp. Narrow host range, limited to grapevine. 
-  * Genus names 
-    * //Agrobacterium//: 1 circular chromosome (~2.9 Mb) +  1 linear chromid (~2.2 Mb); BV1 & BV1-like. The linear chromid is a specific trait. 
-    * //Allorhizobium//: 1 circular chromosome (~3.7 Mb) +  1 circular chromid (~1.3 Mb); BV3 
-    * //Rhizobium//: 1 circular chromosome (~3.8-4.8 Mb) +  1 or more circular chromids; BV2, BV2-like, diverse rhizobia 
- 
- 
-===== Literature ===== 
- 
-==== Review ==== 
- 
-==== Genome ==== 
- 
-==== Genomospecies ==== 
- 
-==== Chromid ==== 
- 
-==== Plasmids ==== 
- 
-==== Type IV Secretion System (T4SS) ==== 
- 
-==== Type VI Secretion System (T6SS) ==== 
- 
- 
-===== Contributors ===== 
-  * [[https://bpp.oregonstate.edu/users/jeff-chang|Jeff H. Chang]]; Department of Botany and Plant Pathology, Oregon State University, USA 
-  * [[https://ipmb.sinica.edu.tw/chkuo/|Chih-Horng Kuo]] (<color #00008B>site manager</color>); Institute of Plant and Microbial Biology, Academia Sinica, Taiwan 
-  * [[https://ipmb.sinica.edu.tw/emlai/|Erh-Min Lai]]; Institute of Plant and Microbial Biology, Academia Sinica, Taiwan 
-  * [[https://weisberglab.com/|Alexandra J. Weisberg]]; Department of Botany and Plant Pathology, Oregon State University, USA 
  
  
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