literature
This is an old revision of the document!
Table of Contents
Literature
Review
- Kado (2014) Historical account on gaining insights on the mechanism of crown gall tumorigenesis induced by Agrobacterium tumefaciens. Front Microbiol. 5:340. https://doi.org/10.3389/fmicb.2014.00340
- Nester (2015) Agrobacterium: nature’s genetic engineer. Front Plant Sci 5:730. https://doi.org/10.3389/fpls.2014.00730
- Hwang et al. (2017) The Arabidopsis Book. Agrobacterium-mediated plant transformation: biology and applications. Arabidopsis Book 15:e0186. https://doi.org/10.1199/tab.0186
- Weisberg et al. (2023) Virulence and ecology of agrobacteria in the context of evolutionary genomics. Annu Rev Phytopathol. https://doi.org/10.1146/annurev-phyto-021622-125009
Genomospecies
- Costechareyre et al. (2010). Rapid and efficient identification of Agrobacterium species by recA allele analysis: Agrobacterium recA diversity. Microb Ecol 60:862–872. https://doi.org/10.1007/s00248-010-9685-7
- Lassalle et al. (2011). Genomic species are ecological species as revealed by comparative genomics in Agrobacterium tumefaciens. Genome Biol Evol 3:762–781. https://doi.org/10.1093/gbe/evr070
- Use strain C58 (BV1 G8) as the reference, performed microarray hybridization to check presence/absence of specific genomic regions in 25 different strains; strains classified to the same genomospecies are more similar.
- G8 named as Agrobacterium fabrum
- Shams et al. (2013). Rapid and accurate species and genomic species identification and exhaustive population diversity assessment of Agrobacterium spp. using recA-based PCR. Syst Appl Microbiol 36:351–358. https://doi.org/10.1016/j.syapm.2013.03.002
- Lassalle et al. (2017) Ancestral genome estimation reveals the history of ecological diversification in Agrobacterium. Genome Biol Evol 9, 3413–3431. https://doi.org/10.1093/gbe/evx255
- Weisberg et al. (2020). Unexpected conservation and global transmission of agrobacterial virulence plasmids. Science 368:eaba5256. https://doi.org/10.1126/science.aba5256
- Chou et al. (2022). Modular evolution of secretion systems and virulence plasmids in a bacterial species complex. BMC Biol 20:16. https://doi.org/10.1186/s12915-021-01221-y
- Genome-scale phylogeny; comparison of divergence based on average nucleotide identity (ANI) and gene content; focused analysis on secretion systems and plasmids
Genome
- Goodner et al. (2001) Genome sequence of the plant pathogen and biotechnology agent Agrobacterium tumefaciens C58. Science 294:2323–2328. https://doi.org/10.1126/science.1066803
- Wood et al. (2001) The genome of the natural genetic engineer Agrobacterium tumefaciens C58. Science 294:2317–2323. https://doi.org/10.1126/science.1066804
- Goodner et al. (2001) and Wood et al. (2001) are back-to-back papers; first Agrobacterium genome sequence, strain C58
- Slater et al. (2009) Genome sequences of three Agrobacterium biovars help elucidate the evolution of multichromosome genomes in bacteria. J Bacteriol 191:2501–2511. https://doi.org/10.1128/JB.01779-08
- The first genome sequence for BV2 (strain K84) and BV3 (strain S4); 3-way comparison with BV1 (C58)
- Model for the evolution of different chromosome/chromid organization among different lineages of ARC
- Weisberg et al. (2020). Unexpected conservation and global transmission of agrobacterial virulence plasmids. Science 368:eaba5256. https://doi.org/10.1126/science.aba5256
- Large scale genome sequencing; ??? new assemblies released
- Chou et al. (2022). Modular evolution of secretion systems and virulence plasmids in a bacterial species complex. BMC Biol 20:16. https://doi.org/10.1186/s12915-021-01221-y
- Major improvement in the taxon sampling; 14 (nearly) complete assemblies from genomospecies that were poorly characterized
Chromid
- Harrison et al. (2010) Introducing the bacterial ‘chromid’: not a chromosome, not a plasmid. Trends Microbiol 18:141–148. https://doi.org/10.1016/j.tim.2009.12.010
- Opinion paper on the concept of chrmoid
- Ramírez-Bahena et al. (2014) Single acquisition of protelomerase gave rise to speciation of a large and diverse clade within the Agrobacterium/Rhizobium supercluster characterized by the presence of a linear chromid. Mol Phylogenet Evol 73:202–207. https://doi.org/10.1016/j.ympev.2014.01.005
- Strains with a linear chromid shared a common ancestor, which acquired telA https://doi.org/10.1016/j.ympev.2014.01.005
Plasmids
Type IV Secretion System (T4SS)
Type VI Secretion System (T6SS)
literature.1684252392.txt.gz · Last modified: 2023/05/16 15:53 by chk