Novel genetic traits inXanthomonasunveiled by the complete genome sequencing of three clade-1 xanthomonads DOI Creative Commons
Chloé Peduzzi, Angeliki Sagia, Daiva Burokienė

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2022, Volume and Issue: unknown

Published: Oct. 10, 2022

ABSTRACT Evolutionary early-branching xanthomonads, also referred to as clade-1 include major plant pathogens, most of which colonize monocotyledonous plants. Seven species have been validly described, among them the two sugarcane pathogens Xanthomonas albilineans and sacchari , translucens infects small grain cereals, diverse grasses, but asparagus pistachio trees. Single-gene sequencing genomic approaches indicated that this clade likely contains more, yet undescribed species. In study, we sequenced representative strains three novel using long-read technology. sp. pv. phormiicola strain CFBP 8444 causes bacterial streak on New Zealand flax, another plant. 8443 has isolated from common bean 8445 originated banana. Complete assemblies chromosomes confirmed their unique taxonomic position within 1 . Genome mining revealed genetic traits, hitherto in other members genus. 8444, identified genes related synthesis coronatine-like compounds, a phytotoxin produced by several pseudomonads, raises interesting questions about evolution pathogenicity pathogen. addition, was found encode second, atypical flagellar gene cluster addition canonical cluster. Overall, research represents an important step toward better understanding evolutionary history biology xanthomonads.

Language: Английский

Xanthomonas chitinilytica sp. nov., a novel chitinolytic bacterium isolated from a microbial fermentation bed material DOI
Xiaodong Liu, Xin Liu,

Zhenshan Deng

et al.

Antonie van Leeuwenhoek, Journal Year: 2024, Volume and Issue: 117(1)

Published: Jan. 8, 2024

Language: Английский

Citations

3
Three new species, Xanthomonas hawaiiensis sp. nov., Stenotrophomonas aracearum sp. nov., and Stenotrophomonas oahuensis sp. nov., isolated from the Araceae family DOI Creative Commons
Shu-Cheng Chuang, Shefali Dobhal,

Anne M. Alvarez

et al.

Frontiers in Microbiology, Journal Year: 2024, Volume and Issue: 15

Published: April 9, 2024

Xanthomonas and Stenotrophomonas are closely related genera in the family Lysobacteraceae. In our previous study of aroid-associated bacterial strains, most strains isolated from anthurium other aroids were reclassified as X. phaseoli species. However, two Spathiphyllum Colocasia phylogenetically distant clade Anthurium clustered within clade. Phylogenetic trees based on 16S rRNA nine housekeeping genes placed former with type strain sacchari sugarcane latter S. bentonitica bentonite. pairwise comparisons overall genomic relatedness indices required delineation new species; digital DNA–DNA hybridization average nucleotide identity values lower than 70 95%, respectively. Hence, three species proposed: aracearum sp. nov. oahuensis for hawaiiensis spathiphyllum colocasia, The genome size is ~4.88 Mbp higher (4.33 Mbp) (4.68 Mbp). Gene content analysis revealed 425 576 core present 40 xanthomonads 25 stenotrophomonads, number unique spp. was spp., implying genetic diversity .

Language: Английский

Citations

3
Comparative genomics-based insights into Xanthomonas indica , a non-pathogenic species of healthy rice microbiome with bioprotection function DOI
Rekha Rana,

Praveen Kumar Nayak,

Vishnu Narayanan Madhavan

et al.

Applied and Environmental Microbiology, Journal Year: 2024, Volume and Issue: 90(9)

Published: Aug. 19, 2024

ABSTRACT Xanthomonas species are major pathogens of plants and have been studied extensively. There is increasing recognition the importance non-pathogenic within same genus. With this came need to understand genomic functional diversity (NPX) at strain level. This study reports isolation investigation into variation in NPX isolates, chiefly indica , a newly discovered from rice. The establishes relationship X. strains clade I Xanthomonads with another species, sontii also associated rice seeds. Identification highly diverse strains, open-pan genome, systematic hyper-variation lipopolysaccharide biosynthetic locus when compared pathogenic indicates acquisition new functions for adaptation. Furthermore, comparative genomics studies established absence virulence genes such as type III secretion system effectors, which present pathogens, presence known bacterial-killing IV (X-T4SS). were found protect bacterial leaf blight pathogen, oryzae pv. (Xoo). phenotype an X-T4SS mutant suggests redundancy genetic basis mechanisms involved bioprotection function, may include multiple loci, putative bacteriocin-encoding gene clusters involvement other factors nutrient niche competition apart induction innate immunity through shared microbial-associated molecular patterns. rice-NPX community its counterpart can be promising model understanding plant-microbe-microbiome interaction studies. IMPORTANCE group bacteria characteristic lifestyle phytopathogen. However, discovery shift bacteria. Multi-strain, in-depth genomic, evolutionary on each these still lacking. provides novel insights genome diversity, dynamics, trends microbiome relatives that form sub-clade. Interestingly, we uncovered species. plant protection property shows their part healthy microbiome. finding open pan-genome large-scale significant role host findings high-quality resources will allow further host-associated microbial health.

Language: Английский

Citations

3
Seed endophytes of malting barley from different locations are shaped differently and are associated with malt quality traits DOI Creative Commons
Oyeyemi O. Ajayi, Ramamurthy Mahalingam

BMC Plant Biology, Journal Year: 2025, Volume and Issue: 25(1)

Published: Feb. 5, 2025

Language: Английский

Citations

0
Research on the Endophytic Bacterial Diversity and Core Microbial Composition in Seawater Rice Seeds DOI
Yang Liu,

Ye You,

Li Ni

et al.

Published: Jan. 1, 2025

Language: Английский

Citations

0
Phylogenomic Analysis Supports the Transfer of 20 Pathovars from Xanthomonas campestris into Xanthomonas euvesicatoria DOI Creative Commons
James Harrison, Rana M. F. Hussain, Andrew Aspin

et al.

Taxonomy, Journal Year: 2023, Volume and Issue: 3(1), P. 29 - 45

Published: Jan. 6, 2023

The Gram-negative bacterial genus Xanthomonas includes numerous infra-specific taxa known as pathovars, which are defined primarily on host range and disease symptoms. With the advent of molecular sequence data, many pathovars have been transferred from X. campestris into other species to better harmonise taxonomy phylogeny. We performed whole-genome shotgun sequencing pathotype strains following pathovars: blepharidis, carissae, clerodendri, convolvuli, coriandri, daturae, euphorbiae, fici, heliotropii, ionidii, lawsoniae, mirabilis, obscurae, paulliniae, pennamericanum, spermacoces, uppalii, vernoniae, viegasii zingibericola. These genomes showed more than 98% average nucleotide identity with type-strain euvesicatoria less 88% campestris. propose transfer these present an emended description for euvesicatoria.

Language: Английский

Citations

7
Xanthomonas as a model system for studying pathogen emergence and evolution DOI
Sujan Timilsina,

Amandeep Kaur,

Anuj Sharma

et al.

Phytopathology, Journal Year: 2024, Volume and Issue: 114(7), P. 1433 - 1446

Published: April 22, 2024

In this review, we highlight studies in which whole-genome sequencing, comparative genomics, and population genomics have provided unprecedented insights into past ongoing pathogen evolution. These include new understandings of the adaptive evolution secretion systems their effectors. We focus on

Language: Английский

Citations

2
Draft genome sequences for ten strains of Xanthomonas species that have phylogenomic importance DOI Creative Commons
James Harrison, Rana M. F. Hussain, Shannon F. Greer

et al.

Access Microbiology, Journal Year: 2023, Volume and Issue: 5(7)

Published: July 1, 2023

Here we report draft-quality genome sequences for pathotype strains of eight plant-pathogenic bacterial pathovars: Xanthomonas campestris pv. asclepiadis, X. cannae, esculenti, nigromaculans, parthenii, phormiicola, zinniae and dyei eucalypti (= eucalypti). We also sequenced the type strain species melonis unclassified NCPPB 1067. These data will be useful phylogenomic taxonomic studies, filling some important gaps in sequence coverage phylogenetic diversity. include representatives previously under-sequenced pathovars species-level clades. Furthermore, these may elucidating molecular basis phenotypes, such as biosynthesis coronatine-related toxins degradation fungal toxin cercosporin.

Language: Английский

Citations

5
Comparative Genomic Analysis of Phytopathogenic Xanthomonas Species Suggests High Level of Genome Plasticity Related to Virulence and Host Adaptation DOI Creative Commons
Juan Carlos Ariute, Diego Lucas Neres Rodrigues, Siomar de Castro Soares

et al.

Bacteria, Journal Year: 2022, Volume and Issue: 1(4), P. 218 - 241

Published: Oct. 8, 2022

Xanthomonas bacteria are known phytopathogens difficult to control in the field, which cause great losses many economically important crops. Genomic islands fragments acquired by horizontal transference that for evolution and adaptation diverse ecological niches. Virulence pathogenicity (PAIs) enhance molecular mechanisms related host adaptation. In this work, we have analyzed 81 genomes belonging X. campestris, a complex group of citri, axonopodis, fuscans nine different pathovars three subspecies, analyze compare their genomic contents. pan-genome is open has massive accessory genome. Each genome showed between 15 exclusive PAIs, well conserved through strains same pathovar or subspecies. axonopodis pv. anacardii had higher general similarity citri subsp. aurantifolii, with few PAIs were shared. synteny was even almost all strains, rearrangements found anacardii. The prophage regions identified mostly questionable incomplete, PAI13 campestris ATCC33913 matched region 19 transposable elements. Finally, pathovar-specific, requiring individual strategies combat.

Language: Английский

Citations

8
Complete Genome Sequencing of Three Clade-1 Xanthomonads Reveals Genetic Determinants for a Lateral Flagellin and the Biosynthesis of Coronatine-Like Molecules in Xanthomonas DOI
Chloé Peduzzi, Angeliki Sagia, Daiva Burokienė

et al.

Phytopathology, Journal Year: 2023, Volume and Issue: 113(7), P. 1185 - 1191

Published: Jan. 8, 2023

Evolutionarily, early-branching xanthomonads, also referred to as clade-1 include major plant pathogens, most of which colonize monocotyledonous plants. Seven species have been validly described, among them the two sugarcane pathogens Xanthomonas albilineans and sacchari, well translucens, infects small-grain cereals diverse grasses but asparagus pistachio trees. Single-gene sequencing genomic approaches indicated that this clade likely contains more, yet-undescribed species. In study, we sequenced representative strains three novel using long-read technology. campestris pv. phormiicola strain CFBP 8444 causes bacterial streak on New Zealand flax, another plant. sp. 8443 has isolated from common bean, 8445 originated banana. Complete assemblies chromosomes confirmed their unique phylogenetic position within 1 Xanthomonas. Genome mining revealed genetic features, hitherto undescribed in other members genus. 8444, identified genes related synthesis coronatine-like compounds, a phytotoxin produced by several pseudomonads, raises interesting questions about evolution pathogenicity pathogen. Furthermore, was found contain second, atypical flagellar gene cluster addition canonical cluster. Overall, research represents an important step toward better understanding evolutionary history biology xanthomonads.

Language: Английский

Citations

4