Complete genome sequence of Kosakonia oryzae type strain Ola 51T

Li, Yuanyuan; Li, Shuying; Chen, Mingyue; Peng, Guixiang; Tan, Zhiyuan; An, Qianli

doi:10.1186/s40793-017-0240-8

Cited by 14 publications

(8 citation statements)

References 38 publications

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“…Furthermore, feeding dairy cows with the silage abundant in Clostridium would likely lead to the decrease of feed intake and a higher ketosis incidence ( Muck, 2010 ). Kosakonia and Pantoea are two new genera recently classified from the genus Enterobacter ( Li, 2016 ). The decline of these bacteria in the VA-treated silages might contribute to the reduction of DML and ammonia-N content.…”

Section: Discussionmentioning

confidence: 99%

Effects of Vanillic Acid on Dynamic Fermentation Parameter, Nitrogen Distribution, Bacterial Community, and Enzymatic Hydrolysis of Stylo Silage

Wang

et al. 2021

Front. Microbiol.

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Vanillic acid (VA) is a phenolic acid derivative commonly found in plants and foods, with a pleasant creamy odor and pharmacologic activities, which is hypothesized to help improve silage fermentation. The silage profile of stylo silage ensiled with addition of VA was evaluated. The results showed that VA addition resulted in the decrease of pH value (5.22 vs. 4.33), dry matter loss (5.37 vs. 2.51% DM), and ammonia-N proportion (14.57 vs. 1.51% CP) of stylo silage as well as the increase of lactic acid concentration (0.51 vs. 1.17% DM), true protein proportion (51.18 vs. 58.47% CP), and saccharification yield (113.64 vs. 126.40 mg/g DM). Meanwhile, bacterial community of stylo silage was altered, where the relative abundance of Enterobacter, Clostridium, and Kosakonia decreased and that of Commensalibacter and Methylobacterium increased. In conclusion, it is suggested that VA could be used as a novel silage additive to improve silage fermentation and nutrient preservation of stylo silage.

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Section: Discussionmentioning

confidence: 99%

Effects of Vanillic Acid on Dynamic Fermentation Parameter, Nitrogen Distribution, Bacterial Community, and Enzymatic Hydrolysis of Stylo Silage

Wang

et al. 2021

Front. Microbiol.

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“…Our studies have shown that the first flagellar system of DSM 16656 T (KFS1.a + KFS1.b) is expressed in liquid culture and upregulated in response to root exudates (Figure 3 ) indicating that KFS1 is used for swimming toward host plants; but the purpose of KFS2 has to be determined yet. Kosakonia oryzae Ola 51 T is closely related to K. radicincitans DSM 16656 T (Figure 1 ), possesses both flagellar systems (Figure 4 ) and like DSM 16656 T was found to be peritrichously flagellated (Li et al, 2017 ), but whether both flagellar systems contribute to formation of peritrichously inserted flagella still has to be investigated.…”

Section: Discussionmentioning

confidence: 99%

Comparative Genomics Reveal a Flagellar System, a Type VI Secretion System and Plant Growth-Promoting Gene Clusters Unique to the Endophytic Bacterium Kosakonia radicincitans

et al. 2018

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The recent worldwide discovery of plant growth-promoting (PGP) Kosakonia radicincitans in a large variety of crop plants suggests that this species confers significant influence on plants, both in terms of yield increase and product quality improvement. We provide a comparative genome analysis which helps to unravel the genetic basis for K. radicincitans' motility, competitiveness and plant growth-promoting capacities. We discovered that K. radicincitans carries multiple copies of complex gene clusters, among them two flagellar systems and three type VI secretion systems (T6SSs). We speculate that host invasion may be facilitated by different flagella, and bacterial competitor suppression by effector proteins ejected via T6SSs. We found a large plasmid in K. radicincitans DSM 16656T, the species type strain, that confers the potential to exploit plant-derived carbon sources. We propose that multiple copies of complex gene clusters in K. radicincitans are metabolically expensive but provide competitive advantage over other bacterial strains in nutrient-rich environments. The comparison of the DSM 16656T genome to genomes of other genera of enteric plant growth-promoting bacteria (PGPB) exhibits traits unique to DSM 16656T and K. radicincitans, respectively, and traits shared between genera. We used the output of the in silico analysis for predicting the purpose of genomic features unique to K. radicincitans and performed microarray, PhyloChip, and microscopical analyses to gain deeper insight into the interaction of DSM 16656T, plants and associated microbiota. The comparative genome analysis will facilitate the future search for promising candidates of PGPB for sustainable crop production.

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“…When detected, PBC6.1 colonized to ~2×10 5 CFU g –1 of root FW. Kosakonia sacchari is known to be associated with sugarcane ( Saccharum officinarum ) ( Chen et al , 2014 ; Gu et al , 2014 ) and sweet potato ( Ipomoea batatas ) ( Shinjo et al , 2016 ), while other members of the genus Kosakonia (formerly part of Enterobacter ) are beneficially associated with cereal crops including wheat ( Kämpfer et al ., 2005 ), sugarcane ( Taule et al , 2016 ; Beracochea et al , 2019 ; Taule et al , 2019 ), rice ( Oryza sativa ) ( Li et al , 2016 ; Li et al , 2017 ), and corn ( Kämpfer et al ., 2016 ). Using fluorescence microscopy of roots inoculated with a strain of PBC6.1 expressing RFP, we observed colonization of the corn root surface along the perimeters of cells ( Supplementary Fig.…”

Section: Resultsmentioning

confidence: 99%

Biological nitrogen fixation in maize: optimizing nitrogenase expression in a root-associated diazotroph

Bloch

Clark

Gottlieb

et al. 2020

Journal of Experimental Botany

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Plants depend upon beneficial interactions between roots and root-associated microorganisms for growth promotion, disease suppression, and nutrient availability. This includes the ability of free-living diazotrophic bacteria to supply nitrogen, an ecological role that has been long underappreciated in modern agriculture for efficient crop production systems. Long-term ecological studies in legume–rhizobia interactions have shown that elevated nitrogen inputs can lead to the evolution of less cooperative nitrogen-fixing mutualists. Here we describe how reprogramming the genetic regulation of nitrogen fixation and assimilation in a novel root-associated diazotroph can restore ammonium production in the presence of exogenous nitrogen inputs. We isolated a strain of the plant-associated proteobacterium Kosakonia sacchari from corn roots, characterized its nitrogen regulatory network, and targeted key nodes for gene editing to optimize nitrogen fixation in corn. While the wild-type strain exhibits repression of nitrogen fixation in conditions replete with bioavailable nitrogen, such as fertilized greenhouse and field experiments, remodeled strains show elevated levels in the rhizosphere of corn in the greenhouse and field even in the presence of exogenous nitrogen. Such strains could be used in commercial applications to supply fixed nitrogen to cereal crops.

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Complete genome sequence of Kosakonia oryzae type strain Ola 51T

Cited by 14 publications

References 38 publications

Effects of Vanillic Acid on Dynamic Fermentation Parameter, Nitrogen Distribution, Bacterial Community, and Enzymatic Hydrolysis of Stylo Silage

Effects of Vanillic Acid on Dynamic Fermentation Parameter, Nitrogen Distribution, Bacterial Community, and Enzymatic Hydrolysis of Stylo Silage

Comparative Genomics Reveal a Flagellar System, a Type VI Secretion System and Plant Growth-Promoting Gene Clusters Unique to the Endophytic Bacterium Kosakonia radicincitans

Biological nitrogen fixation in maize: optimizing nitrogenase expression in a root-associated diazotroph

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