scholarly journals Genome resource of Ancylobacter pratisalsi E130 T: A novel plant growth-promoting bacterium isolated from the rhizosphere

2021 ◽  
Author(s):  
Wenhan Nie ◽  
Xin Zheng ◽  
Sai Wang ◽  
Iftikhar Ahmad ◽  
Bo Zhu
Keyword(s):  
Plant Growth ◽  
Plant Growth Promotion ◽  
Complete Genome ◽  
Growth Promotion ◽  
Gc Content ◽  
Genomic Analysis ◽  
Rrna Genes ◽  
Alkaline Soil ◽  
Entire Genome ◽  
Salt Meadow

Ancylobacter pratisalsi sp. nov. strain E130T is a Gram negative, non-motile, aerobic and rod-shaped bacterium, which was recently isolated from the rhizosphere of Plantago winteri Wirtg from a natural salt meadow. This strain was described as novel species in Ancylobacter genus, however information about its complete genome has yet not been reported. In this study, its genome was completely sequenced by PacBio SMRT cell platform, analyzed, and compared with other selected complete genome sequences of Ancylobacter and elucidated its potential plant growth promotion abilities. The genomic analysis revealed that the genome of strain E130T consists of one circular DNA chromosome of 4,618,530 bp with a GC content of 66% and one plasmid of 159,741 bp with a GC content of 64.13%. The entire genome contains 4,322 predicted coding genes, 49 tRNAs and 6 rRNA genes. Genome analysis identified a siderophore natural product biosynthesis cluster, which produces fuscachelin. Knockout of several key genes in this cluster, significantly reduces the plant growth-promotion ability of the strain E130T. Besides plant growth-promotion, the strain E130T can grow well on 5 % NaCl (w/v), conferring this strain as potential bio-resource for successful production of economic crops in alkaline soil.

scholarly journals Complete Genome Sequence of Bacillus licheniformis TAB7, a Compost-Deodorizing Strain with Potential for Plant Growth Promotion

2019 ◽  
Vol 8 (4) ◽  
Author(s):  
Enock Mpofu ◽  
Felipe Vejarano ◽  
Chiho Suzuki-Minakuchi ◽  
Yoshiyuki Ohtsubo ◽  
Masataka Tsuda ◽  
...  
Keyword(s):  
Fatty Acids ◽  
Plant Growth ◽  
Genome Sequence ◽  
Bacillus Licheniformis ◽  
Plant Growth Promotion ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Growth Promotion ◽  
Short Chain Fatty Acids ◽  
Content Type

Bacillus licheniformis strain TAB7 degrades short-chain fatty acids responsible for offensive odor in manure and is used as a deodorant in a compost-deodorizing technology. Here, we report the complete genome sequence of strain TAB7, which consists of a 4.37-Mb chromosome and two plasmids (42 kb and 31 kb).

Evaluation of bacteria isolated from rice for plant growth promotion and biological control of seedling disease of rice

2001 ◽  
Vol 47 (10) ◽  
pp. 916-924 ◽  
Author(s):  
Tika B Adhikari ◽  
C M Joseph ◽  
Guoping Yang ◽  
Donald A Phillips ◽  
Louise M Nelson
Keyword(s):  
Biological Control ◽  
Plant Growth ◽  
Plant Growth Promotion ◽  
Growth Promotion ◽  
Disease Incidence ◽  
Control Plant ◽  
16S Rrna Genes ◽  
Rrna Genes ◽  
Bacterial Strains ◽  
Seedling Disease

Of 102 rhizoplane and endophytic bacteria isolated from rice roots and stems in California, 37% significantly (P [Formula: see text] 0.05) inhibited the growth in vitro of two pathogens, Achlya klebsiana and Pythium spinosum, causing seedling disease of rice. Four endophytic strains were highly effective against seedling disease in growth pouch assays, and these were identified as Pseudomonas fluorescens (S3), Pseudomonas tolaasii (S20), Pseudomonas veronii (S21), and Sphingomonas trueperi (S12) by sequencing of amplified 16S rRNA genes. Strains S12, S20, and S21 contained the nitrogen fixation gene, nifD, but only S12 was able to reduce acetylene in pure culture. The four strains significantly enhanced plant growth in the absence of pathogens, as evidenced by increases in plant height and dry weight of inoculated rice seedlings relative to noninoculated rice. Three bacterial strains (S3, S20, and S21) were evaluated in pot bioassays and reduced disease incidence by 50%–73%. Strain S3 was as effective at suppressing disease at the lowest inoculum density (106 CFU/mL) as at higher density (108 CFU/mL or undiluted suspension). This study indicates that selected endophytic bacterial strains have potential for control of seedling disease of rice and for plant growth promotion.Key words: biological control, plant growth promotion, endophytes, rice, seedling disease.

scholarly journals Whole Genome Analysis of Sugarcane Root-Associated Endophyte Pseudomonas aeruginosa B18—A Plant Growth-Promoting Bacterium With Antagonistic Potential Against Sporisorium scitamineum

2021 ◽  
Vol 12 ◽  
Author(s):  
Pratiksha Singh ◽  
Rajesh Kumar Singh ◽  
Dao-Jun Guo ◽  
Anjney Sharma ◽  
Ram Nageena Singh ◽  
...  
Keyword(s):  
Pseudomonas Aeruginosa ◽  
Plant Growth ◽  
Plant Growth Promotion ◽  
Genome Analysis ◽  
Growth Promotion ◽  
Rrna Genes ◽  
Whole Genome ◽  
Whole Genome Analysis ◽  
Circular Chromosome ◽  
Sporisorium Scitamineum

Sugarcane smut is a significant fungal disease that causes a major loss in sugar yield and quality. In this study, we isolated an endophytic strain B18 from a sugarcane root, which showed plant growth-promotion, hydrolytic enzyme production, antifungal activity against sugarcane pathogens (Sporisorium scitamineum, Ceratocystis paradoxa, Fusarium verticillioides), and the presence of nifH, acdS, and antibiotic genes (hcn, prn, and phCA) under in vitro conditions. BIOLOG(R) phenotypic profiling of B18 established its ability to use various carbon and nitrogen sources and tolerate a range of pH and osmotic and temperature stresses. Whole-genome analysis of B18, identified as Pseudomonas aeruginosa, showed that it consists of a single circular chromosome of 6,490,014 bp with 66.33% GC content. Genome annotation has identified 5,919 protein-coding genes, and 65 tRNA, and 12 rRNA genes. The P. aeruginosa B18 genome encodes genes related to ethylene, nitrogen (nifU, norBCDERQ, gltBDPS, and aatJMPQ), and phosphate (pstABCS and phoBDHRU) metabolism and produce indole-3-acetic acid and siderophores. This also includes genes encoding hydrolases and oxidoreductases, those associated with biocontrol mechanisms (hcnABC, phzA_B, phzDEFGMS, and pchA), colonization (minCDE and lysC), and biofilm formation (efp, hfq, flgBCDEFGHI, and motAB), and those associated with metabolism of secondary metabolites. Collectively, these results suggest a role for P. aeruginosa B18 in plant growth enhancement and biocontrol mechanisms. The P. aeruginosa B18 strain was found to be an efficient colonizer in sugarcane; it can improve growth through modulation of plant hormone production and enhanced host-plant resistance to smut pathogen S. scitamineum in a smut-susceptible sugarcane variety (Yacheng71-374). These biocontrol and plant growth promotion properties of P. aeruginosa B18 area are discussed in this report.

scholarly journals Complete Genome Sequence of Bacillus badius NBPM-293, a Plant Growth-Promoting Strain Isolated from Rhizosphere Soil

2021 ◽  
Vol 10 (45) ◽  
Author(s):  
Lei Zhu ◽  
Yueying Wang ◽  
Jiancheng Lu ◽  
Simeng Liu ◽  
Yong Min ◽  
...  
Keyword(s):  
Plant Growth ◽  
Genome Sequence ◽  
Plant Growth Promotion ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Rhizosphere Soil ◽  
Growth Promotion ◽  
Plant Growth Promoting ◽  
History Of ◽  
Growth Promoting

Bacillus species have a long history of widespread use in biocontrol and crop growth-promoting fields. Here, we present the genome sequence of the rhizobacterium B. badius NBPM-293. The genome sequence will provide valuable information for a better understanding of the mechanism of plant growth promotion.

scholarly journals Diazotrophic bacteria from maize exhibit multifaceted plant growth promotion traits in multiple hosts

2020 ◽  
Author(s):  
Shawn M. Higdon ◽  
Tania Pozzo ◽  
Emily J. Tibbett ◽  
Colleen Chiu ◽  
Richard Jeannotte ◽  
...  
Keyword(s):  
Plant Growth ◽  
Plant Growth Promotion ◽  
Growth Promotion ◽  
Genomic Analysis ◽  
Comparative Genomic ◽  
Marker Genes ◽  
Diazotrophic Bacteria ◽  
In Planta ◽  
Pgp Traits

AbstractSierra Mixe maize is a geographically remote landrace variety grown on nitrogen-deficient fields in Oaxaca, Mexico that meets its nutritional requirements without synthetic fertilizer by associating with free-living diazotrophs comprising the microbiota of its aerial root mucilage. We selected nearly 500 diazotrophic bacteria isolated from Sierra Mixe maize mucilage and sequenced their genomes. Comparative genomic analysis demonstrated that isolates represented diverse genera and possessed multiple marker genes for mechanisms of direct plant growth promotion (PGP). In addition to nitrogen fixation, we examined deamination of 1-amino-1-cyclopropanecarboxylic acid, biosynthesis of indole-3-acetic acid, and phosphate solubilization. Implementing in vitro colorimetric assays revealed each isolate’s potential to confer the alternative PGP activities that corroborated genotype and pathway content. We examined the ability of mucilage diazotrophs to confer PGP by direct inoculation of clonally propagated potato plants in planta, which led to the identification of bio-stimulant candidates that were tested for PGP by inoculating a conventional maize variety. The results indicate that, while many diazotrophic isolates from Sierra Mixe maize possessed genotypes and in vitro phenotypes for targeted PGP traits, a subset of these organisms promoted the growth of potato and conventional maize using multiple promotion mechanisms.

scholarly journals Genomic Analysis of the 1-Aminocyclopropane-1-Carboxylate Deaminase-Producing Pseudomonas thivervalensis SC5 Reveals Its Multifaceted Roles in Soil and in Beneficial Interactions With Plants

2021 ◽  
Vol 12 ◽  
Author(s):  
Francisco X. Nascimento ◽  
Paola Urón ◽  
Bernard R. Glick ◽  
Admir Giachini ◽  
Márcio J. Rossi
Keyword(s):  
Biological Control ◽  
Plant Growth ◽  
Pseudomonas Syringae ◽  
Plant Growth Promotion ◽  
Growth Promotion ◽  
Genomic Analysis ◽  
Acc Deaminase ◽  
Quorum Quenching ◽  
Cucumber Plant

Beneficial 1-aminocyclopropane-1-carboxylate (ACC) deaminase-producing bacteria promote plant growth and stress resistance, constituting a sustainable alternative to the excessive use of chemicals in agriculture. In this work, the increased plant growth promotion activity of the ACC deaminase-producing Pseudomonas thivervalensis SC5, its ability to limit the growth of phytopathogens, and the genomics behind these important properties are described in detail. P. thivervalensis SC5 displayed several active plant growth promotion traits and significantly increased cucumber plant growth and resistance against salt stress (100mmol/L NaCl) under greenhouse conditions. Strain SC5 also limited the in vitro growth of the pathogens Botrytis cinerea and Pseudomonas syringae DC3000 indicating active biological control activities. Comprehensive analysis revealed that P. thivervalensis SC5 genome is rich in genetic elements involved in nutrient acquisition (N, P, S, and Fe); osmotic stress tolerance (e.g., glycine-betaine, trehalose, and ectoine biosynthesis); motility, chemotaxis and attachment to plant tissues; root exudate metabolism including the modulation of plant phenolics (e.g., hydroxycinnamic acids), lignin, and flavonoids (e.g., quercetin); resistance against plant defenses (e.g., reactive oxygens species-ROS); plant hormone modulation (e.g., ethylene, auxins, cytokinins, and salicylic acid), and bacterial and fungal phytopathogen antagonistic traits (e.g., 2,4-diacetylphloroglucinol, HCN, a fragin-like non ribosomal peptide, bacteriocins, a lantipeptide, and quorum-quenching activities), bringing detailed insights into the action of this versatile plant-growth-promoting bacterium. Ultimately, the combination of both increased plant growth promotion/protection and biological control abilities makes P. thivervalensis SC5 a prime candidate for its development as a biofertilizer/biostimulant/biocontrol product. The genomic analysis of this bacterium brings new insights into the functioning of Pseudomonas and their role in beneficial plant-microbe interactions.

scholarly journals Genomic analysis and plant growth-promoting potential of a Serratia marcescens isolated from food

2022 ◽  
Vol 11 (1) ◽  
pp. e29611124799
Author(s):  
Cristiane Rodrigues Silva ◽  
Rafael Monção Miller ◽  
Bárbara Costa Pereira ◽  
Lílian Aveleda ◽  
Victor Augustus Marin
Keyword(s):  
Plant Growth ◽  
Serratia Marcescens ◽  
Plant Growth Promotion ◽  
Potential Application ◽  
Growth Promotion ◽  
Genomic Analysis ◽  
Genes Encoding ◽  
Plant Growth Promoting ◽  
Genomic Studies ◽  
Promote Plant Growth

A genomic analysis of the potential application of a Serratia marcescens strain in the plant-growth promotion. We performed whole-genome sequencing of Serratia marcescens isolated from a Minas Frescal Cheese. The genomic repertoire revealed a bacterium of agricultural and biotechnological interest. In the plant-growth promotion traits, we highlight genes encoding proteins possibly responsible for the biosynthesis of phytohormone indole acetic acid, organic compounds that act in iron uptake, and the Phosphate solubilization system. Genes encoding for enzymes like the versatile L-asparaginase stimulates the development of seeds and grains and can benefit the food industry due to a mitigation effect on acrylamide and notably, has medical applications as a chemotherapeutic agent or is applicable by its antimicrobial and anti-inflammatory properties. Moreover, functional diversity of genes encoding for resistance to different metals and metabolism of xenobiotics genes can be found in this strain, reinforcing its biotechnological potential. The versatile enzymes that can be produced by S. marcescens benefit the food, pharmaceutical, textile, agronomic, and cosmetic industries. The relevant genetic systems of S. marcescens described here may be used to promote plant growth and health and improve the environment. To the best of our knowledge, this is the first genome sequence report on S. marcescens isolated from cheese, with potential application as promoting plant growth and providing a baseline for future genomic studies on the development of this species.

scholarly journals Complete Genome Sequence of the Plant Growth-Promoting Bacterium Hartmannibacter diazotrophicus Strain E19T

2019 ◽  
Vol 2019 ◽  
pp. 1-12 ◽  
Author(s):  
Christian Suarez ◽  
Stefan Ratering ◽  
Torsten Hain ◽  
Moritz Fritzenwanker ◽  
Alexander Goesmann ◽  
...  
Keyword(s):  
Salt Stress ◽  
Plant Growth ◽  
Genome Sequence ◽  
Plant Growth Promotion ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Growth Promotion ◽  
Acc Deaminase ◽  
Plant Growth Promoting ◽  
Growth Promoting

Strain E19T described as Hartmannibacter diazotrophicus gen. nov. sp. nov. was isolated from the rhizosphere of Plantago winteri from a natural salt meadow in a nature protection area. Strain E19T is a plant growth-promoting rhizobacterium able to colonize the rhizosphere of barley and to promote its growth only under salt stress conditions. To gain insights into the genetic bases of plant growth promotion and its lifestyle at the rhizosphere under salty conditions, we determined the complete genome sequence using two complementary sequencing platforms (Ilumina MiSeq and PacBio RSII). The E19T genome comprises one circular chromosome and one plasmid containing several genes involved in salt adaptation and genes related to plant growth-promoting traits under salt stress. Based on previous experiments, ACC deaminase activity was identified as a main mechanism of E19T to promote plant growth under salt stress. Interestingly, no genes classically reported to encode for ACC deaminase activity are present. In general, the E19T genome provides information to confirm, discover, and better understand many of its previously evaluated traits involved in plant growth promotion under salt stress. Furthermore, the complete E19T genome sequence helps to define its previously reported unclear 16S rRNA gene-based phylogenetic affiliation. Hartmannibacter forms a distinct subcluster with genera Methylobrevis, Pleomorphomonas, Oharaeibacter, and Mongoliimonas subclustered with genera belonging to Rhizobiales.

scholarly journals Genome Sequence of Micromonospora terminaliae TMS7T, a New Endophytic Actinobacterium Isolated from the Medicinal Plant Terminalia mucronata

2020 ◽  
Vol 33 (5) ◽  
pp. 721-723
Author(s):  
Yongtao Cui ◽  
Yang Lv ◽  
Mengqiu Song ◽  
Sai Wang ◽  
Haitao Hu ◽  
...  
Keyword(s):  
Medicinal Plant ◽  
Gc Content ◽  
Genomic Analysis ◽  
Alkaline Soil ◽  
Entire Genome ◽  
Biosynthesis Gene Cluster ◽  
Transfer Rnas ◽  
Endophytic Actinobacterium ◽  
Application Potential ◽  
Rna Genes

Micromonospora terminaliae sp. nov., type strain TMS7T, is a gram-positive nonmotile aerobic actinobacterium that was recently isolated from a surface-sterilized stem of the medicinal plant Terminalia mucronata. This strain was described as a novel species in the Micromonospora genus. To elucidate the application potential of this species, its genome was completely sequenced, using the PacBio SMRT cell platform, and was compared with selected complete genome sequences of other Micromonospora species. Genomic analysis revealed that the genome of TMS7T consists of one circular DNA chromosome of 6,717,200 bp with a GC content of 73.35% and one plasmid of 24,912 bp with a GC content of 65.39%. The entire genome contains 6,311 predicted coding genes, 57 transfer RNAs, and nine ribosomal RNA genes. The genome contains a type III polyketide biosynthesis gene cluster, which encodes enzymes that catalyze the production of alkyl-O-dihydrogeranyl-methoxyhydroquinone. This information combined with the previous report that this strain can grow well on pH 10 medium with 4% NaCl (wt/vol) indicates that this strain may have potential biocontrol applications for economic plants cultivated on alkaline soil.

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