ArticleFunctional & integrative genomics2020
Whole genome sequencing and identification of host-interactive genes in the rice endophytic Leifsonia sp. ku-ls.
Article in Functional & integrative genomics, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.
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Who cites it
10 citing papers in PubMed.
- Metabarcoding Profiling Reveals Microbiome Structure and Predicts Functional Shifts in Grapevines Challenged by Phyllosticta ampelicida.Microbial ecology · 2025Article
- Deciphering the profiles of grapevine microbiomes from rhizosphere-to-leaf compartments using multi-omic analysis.Frontiers in plant science · 2025Article
- Enhancement of the germination and growth of Panicum miliaceum and Brassica juncea in Cd- and Zn-contaminated soil inoculated with heavy-metal-tolerant Leifsonia sp. ZP3.World journal of microbiology & biotechnology · 2024Article
- Root nodules of red alder (Alnus rubra) and sitka alder (Alnus viridis ssp. sinuata) are inhabited by taxonomically diverse cultivable microbial endophytes.MicrobiologyOpen · 2024Article
- The process of nitrogen-adaptation root endophytic bacterial rather than phosphorus-adaptation fungal subcommunities construction unveiled the tomato yield improvement under long-term fertilization.Frontiers in microbiology · 2024Article
- Reference-based read clustering improves theComputational and structural biotechnology journal · 2023Article
- Towards defining the core Saccharum microbiome: input from five genotypes.BMC microbiology · 2022Article
- Dynamics of PHA-Accumulating Bacterial Communities Fed with Lipid-Rich Liquid Effluents from Fish-Canning Industries.Polymers · 2022Article
- Massively parallel single-cell genomics of microbiomes in rice paddies.Frontiers in microbiology · 2022Article
- Redox Regulation in Diazotrophic Bacteria in Interaction with Plants.Antioxidants (Basel, Switzerland) · 2021Review
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Authors and funding
2 authors.
Funding
Abstract
Leifsonia sp. ku-ls is an endophytic bacterial strain colonizing in high numbers the stem and leaf of the high-yielding and widely grown indica rice cultivar RP Bio-226. Whole genome sequencing of this strain using Illumina Hiseq-2500 system resulted in generation of 10,103,994 paired-end reads of 150 nucleotides length. De novo assembly of the reads with A5MySeq resulted in 51 scaffolds. Kmer analysis with KAT estimated the genome size as 3.83 Mbp with 70% GC content. Annotation of the genome resulted in identification of 3930 protein-coding genes, 45 tRNA genes, and 3 rRNA genes. Detailed analysis of the genes predicted resulted in identification of host beneficial genes which include genes associated with hormone production, nitrogen metabolism, and stress response. There is an elaborate defense against oxidative stress present in this bacterium which also can mitigate plant oxidative stress resulting from disease/abiotic stress. Comparison of this endophytic bacterial genome with non-endophytic Leifsonia sp. showed presence of additional genes, increase in copy number of some of the genes and regulators. Many genes with eukaryotic-like domains have also been identified in this bacterium.
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