scholarly journals Updated Taxonomy of Pectobacterium Genus in the CIRM-CFBP Bacterial Collection: When Newly Described Species Reveal “Old” Endemic Population

2020 ◽  
Vol 8 (9) ◽  
pp. 1441 ◽  
Author(s):  
Perrine Portier ◽  
Jacques Pédron ◽  
Géraldine Taghouti ◽  
Cécile Dutrieux ◽  
Marie-Anne Barny
Keyword(s):  
Host Plants ◽  
Plant Pathogens ◽  
Genomic Analysis ◽  
Taxonomic Status ◽  
Bacterial Strains ◽  
Freshwater Environment ◽  
New Host ◽  
Two New Species ◽  
Endemic Population ◽  
Prevalent Species

Bacterial collections are invaluable tools for microbiologists. However, their practical use is compromised by imprecise taxonomical assignation of bacterial strains. This is particularly true for soft rotting plant pathogens of the Pectobacterium genus. We analysed the taxonomic status of 265 Pectobacterium strains deposited at CIRM-CFBP collection from 1944 to 2020. This collection gathered Pectobacterium strains isolated in 27 countries from 32 plant species representing 17 botanical families or from nonhost environments. The MLSA approach completed by genomic analysis of 15 strains was performed to update the taxonomic status of these 265 strains. The results showed that the CIRM-CFBP Pectobacterium collection harboured at least one strain of each species, with the exception of P. polonicum. Yet, seven strains could not be assigned to any of the described species and may represent at least two new species. Surprisingly, P. versatile, recently described in 2019, is the most prevalent species among CIRM-CFBP strains. An analysis of P. versatile strains revealed that this species is pandemic and isolated from various host plants and environments. At the opposite, other species gathered strains isolated from only one botanical family or exclusively from a freshwater environment. Our work also revealed new host plants for several Pectobacterium spp.

scholarly journals Updated Taxonomy of Pectobacterium genus in the CIRM-CFBP Bacterial Collection: When Newly Described Species Reveal “Old” Endemic Population

2020 ◽  
Author(s):  
Perrine Portier ◽  
Jacques Pédron ◽  
Géraldine Taghouti ◽  
Cécile Dutrieux ◽  
Marie-Anne Barny
Keyword(s):  
Host Plants ◽  
Plant Pathogens ◽  
Water Environment ◽  
Genomic Analysis ◽  
Taxonomic Status ◽  
Bacterial Strains ◽  
New Host ◽  
Endemic Population ◽  
Prevalent Species ◽  
Fresh Water Environment

Bacterial collections are invaluable tools for microbiologists. However, their practical use is compromised by imprecise taxonomical assignation of bacterial strains. This is particularly true for soft rotting plant pathogens of the Pectobacterium genus. To solve this difficulty, we analyzed the taxonomic status of 265 Pectobacterium strains deposited at CIRM-CFBP collection from 1944 to 2020. This collection gathered Pectobacterium strains isolated in 27 countries from 32 plant species representing 17 botanical families or from non-host environments. MLSA approach completed by genomic analysis of 15 strains was performed to update the taxonomic status of these 265 strains. Results showed that the CIRM-CFBP Pectobacterium collection harboured at least one strain of each species to the exception of P. polonicum. Yet, 6 strains could not be assigned to any of the described species and may represent at least two new species. Surprisingly, the P. versatile species, recently described in 2019, is the most prevalent species among CIRM-CFBP strains. Analysis of P. versatile strains revealed that this species is endemic all over the world on various host plants and environments. At the opposite, other species gathered strains isolated from only one botanical family or exclusively from fresh water environment. Our work also revealed new host plants for several Pectobacterium spp.

scholarly journals Description of the Bacterium Causing Blight of Leek as Pseudomonas syringae pv. porri (pv. nov.)

1998 ◽  
Vol 88 (8) ◽  
pp. 844-850 ◽  
Author(s):  
R. Samson ◽  
H. Shafik ◽  
A. Benjama ◽  
L. Gardan
Keyword(s):  
Pseudomonas Syringae ◽  
Host Plants ◽  
Numerical Taxonomy ◽  
Taxonomic Status ◽  
Hypersensitive Reaction ◽  
Ice Nucleation ◽  
Allium Porrum ◽  
Bacterial Strains ◽  
Routine Identification ◽  
Ice Nucleation Activity

Forty bacterial strains isolated from leek blight (Allium porrum) in France and other countries were studied by conventional biochemical methods, serological reactions, numerical taxonomy, DNA-DNA hybridization, and ice nucleation activity, as well as by pathogenicity on leek and other host plants. They were compared with reference strains of Pseudomonas, mainly pathotype strains of P. syringae pathovars and strains of P. syringae pv. syringae isolated from various host plants including onions. Leek strains sorted with P. syringae species (sensu lato) by LOPAT tests (production of levan-sucrase, oxidase, pectinase, arginine dihydrolase, and hypersensitive reaction on tobacco). Leek strains were pathogenic to leek and produced symptoms identical to those observed in the field. They were the only strains in our study that could cause blight of leek. Thus, our results justify the creation of a new pathovar. Leek strains constituted a highly homogeneous DNA group and a discrete phenon by numerical taxonomy, and they belonged to O-serogroup POR. The name of P. syringae pv. porri is proposed for the bacterium causing leek blight. Criteria for routine identification are presented and taxonomic status is discussed.

scholarly journals Comparative Genomic Analysis of the Biotechnological Potential of the Novel Species Pseudomonas wadenswilerensis CCOS 864T and Pseudomonas reidholzensis CCOS 865T

Diversity ◽  
2019 ◽  
Vol 11 (11) ◽  
pp. 204
Author(s):  
Dominik Rutz ◽  
David Frasson ◽  
Martin Sievers ◽  
Jochen Blom ◽  
Fabio Rezzonico ◽  
...  
Keyword(s):  
New Species ◽  
Plant Pathogens ◽  
Draft Genome ◽  
Genomic Analysis ◽  
Yield Potential ◽  
Comparative Genomic ◽  
Genomic Features ◽  
Two New Species ◽  
Genes Encoding ◽  
Potential Applications

In recent years, the use of whole-cell biocatalysts and biocatalytic enzymes in biotechnological applications originating from the genus Pseudomonas has greatly increased. In 2014, two new species within the Pseudomonas putida group were isolated from Swiss forest soil. In this study, the high quality draft genome sequences of Pseudomonas wadenswilerensis CCOS 864T and Pseudomonas reidholzensis CCOS 865T were used in a comparative genomics approach to identify genomic features that either differed between these two new species or to selected members of the P. putida group. The genomes of P. wadenswilerensis CCOS 864T and P. reidholzensis CCOS 865T were found to share genomic features for the degradation of aromatic compounds or the synthesis of secondary metabolites. In particular, genes encoding for biocatalytic relevant enzymes belonging to the class of oxidoreductases, proteases and isomerases were found, that could yield potential applications in biotechnology. Ecologically relevant features revealed that both species are probably playing an important role in the degradation of soil organic material, the accumulation of phosphate and biocontrol against plant pathogens.

scholarly journals Assessing the Phytosanitary Risk Posed by an Intraspecific Invasion of Cryphonectria parasitica in Europe

2019 ◽  
Vol 109 (12) ◽  
pp. 2055-2063 ◽  
Author(s):  
Francesca Dennert ◽  
Joana Beatrice Meyer ◽  
Daniel Rigling ◽  
Simone Prospero
Keyword(s):  
United States ◽  
South Korea ◽  
Plant Pathogens ◽  
Castanea Sativa ◽  
The United States ◽  
Cryphonectria Parasitica ◽  
Seedling Mortality ◽  
New Host ◽  
Phytosanitary Measures

Intraspecific cryptic invasions may occur when new strains of an invasive species are introduced into an area where this species had already been introduced previously. In plant pathogens, such invasions are not well studied, even if, potentially, they can have severe consequences. Here, we investigated the effects of a potential intraspecific invasion in Europe of Cryphonectria parasitica, the causal agent of chestnut blight. Specifically, we tested the hypotheses that (i) non-European strains are more virulent on Castanea sativa than those already present in Europe because they have never encountered this new host, and (ii) the variation in virulence among strains is higher within native than within introduced populations. In a greenhouse, 2-year-old C. sativa seedlings were inoculated with Cryphonectria parasitica strains from South Korea, the United States, and Switzerland, and lesion development and seedling mortality were recorded weekly. Additionally, growth and sporulation of the strains were measured in vitro on agar medium at 15 and 24°C. Although lesion growth was similar for all strains, seedlings inoculated with strains from South Korea and Switzerland died faster than seedlings inoculated with strains from the United States. Moreover, in vitro strains from South Korea grew faster and produced more spores at both temperatures than the strains from the other two countries. In conclusion, our results did not support the two hypotheses. All strains, regardless of their origin, were found to be highly virulent on the inoculated chestnut seedlings. Nevertheless, current phytosanitary measures to avoid the introduction of new genotypes of C. parasitica into Europe should be further implemented.

Revision of the Australian species of Agrotera Schrank (Lepidoptera: Pyraloidea: Crambidae: Spilomelinae)

Zootaxa ◽  
2017 ◽  
Vol 4362 (2) ◽  
pp. 213 ◽  
Author(s):  
KAI CHEN ◽  
MARIANNE HORAK ◽  
XICUI DU ◽  
DANDAN ZHANG
Keyword(s):  
New Species ◽  
Related Species ◽  
Male Genitalia ◽  
New South ◽  
New South Wales ◽  
Taxonomic Status ◽  
Northern Territory ◽  
Australian Species ◽  
South Wales ◽  
Two New Species

The genus Agrotera Schrank, 1802 is revised for Australia and the generic definition is refined based on the male genitalia. The genera Leucinodella Strand, 1918 stat. rev. with L. leucostola (Hampson, 1896) comb. nov., Nistra Walker, 1859 stat. rev. with N. coelatalis Walker, 1859 comb. rev., Sagariphora Meyrick, 1894 stat. rev. with S. magnificalis (Hampson, 1893) comb. nov., and Tetracona Meyrick, 1884 stat. rev. with T. amathealis (Walker, 1859) comb. rev. and T. pictalis Warren, 1896 comb. rev. are removed from synonymy with Agrotera, as they lack the synapomorphies of Agrotera. Two new species, Agrotera genuflexa sp. nov. from Northern Territory, Queensland and New South Wales, and A. longitabulata sp. nov. from Queensland, are described. The taxonomic status of the Australian species of Agrotera is discussed, and a key to all species, based on males, is provided. The adults and genitalia of the new species and some related species are figured. 

Genetics of symbiosis and nitrogen fixation in legumes

1969 ◽  
Vol 172 (1029) ◽  
pp. 417-437 ◽  
Keyword(s):  
Nitrogen Fixation ◽  
Bacterial Strain ◽  
Host Plants ◽  
Strain Differences ◽  
Homogeneous Material ◽  
Developmental Sequence ◽  
Bacterial Strains ◽  
Nodule Bacteria ◽  
Microbial Genetics ◽  
Nodular Tissue

Soon after the isolation of nodule bacteria in 1888, differences were recognized in the ability of bacterial strains to form nodules on particular host plants and in the nitrogen-fixing ability of the nodules so formed. These and other symbiotic heterogeneities were attributed, sometimes correctly, to bacterial strain differences, not then thought to be open to formal genetic analysis. The realization that the host plant was an essential component of this variability came only gradually, stimulated by observations of host varietal differences and by the demand for reliable and homogeneous material for experimental work. Only within the last two decades has host variability been studied by plant breeding, and bacterial strain differences by some of the methods of microbial genetics. This review, except for a brief reference to earlier work of some historic interest, will consider only genetic problems open to investigation by these methods. The developmental sequence in all legume nodules is broadly similar. The initial infection phases are followed by the induction of the nodule, the invasion of part of the nodular tissue and culminate in bacteroid formation and nitrogen fixation; the genetics of symbiosis will be considered in this context.

New species of leaf-mining Nepticulidae (Lepidoptera) from the Neotropical and Ando-Patagonian regions, with new data on host plants

Zootaxa ◽  
2017 ◽  
Vol 4272 (1) ◽  
pp. 1 ◽  
Author(s):  
JONAS R. STONIS ◽  
ANDRIUS REMEIKIS ◽  
ARŪNAS DIŠKUS ◽  
NICK MEGORAN
Keyword(s):  
New Species ◽  
Host Plants ◽  
Virgin Islands ◽  
Distribution Map ◽  
Leaf Miners ◽  
New Host ◽  
British Virgin Islands ◽  
Leaf Mining ◽  
Plant Data ◽  
First Time

The paper treats fifteen species of leaf-mining pygmy moths (Insecta, Lepidoptera, Nepticulidae) discovered in the Neotropics (British Virgin Islands, Belize, Costa Rica, Venezuela, and Ecuador), and Ando-Patagonian region (Argentina and Chile). Except for two species, all belong to Stigmella Schrank. Twelve species are new, and are named and described in the current paper: Stigmella apicibrunella Diškus & Stonis, sp. nov.; S. decora Diškus & Stonis, sp. nov.; S. unicaudata Remeikis & Stonis, sp. nov.; S. sanmartini Remeikis & Stonis, sp. nov.; S. patula Remeikis & Stonis, sp. nov.; S. torosa Remeikis & Stonis, sp. nov.; S. monstrata Remeikis & Stonis, sp. nov.; S. huahumi Remeikis & Stonis, sp. nov.; S. venezuelica Remeikis & Stonis, sp. nov.; S. virginica Remeikis & Stonis, sp. nov.; Fomoria miranda Diškus & Stonis, sp. nov.; and Hesperolyra robinsoni Stonis, sp. n. Newly discovered variation of male genitalia of the Andean Stigmella rudis Puplesis & Robinson, 2000 is briefly discussed, and the formerly poorly understood Stigmella hylomaga (Meyrick, 1931) is redescribed and documented with photographs for the first time. We also present more photographs and add some addtional information on Stigmella gallicola van Nieukerken & Nishida, a recently described gall-maker from Costa Rica.The paper also provides new host-plant data: some of the described (or redescribed) species are reported for the first time as leaf-miners on plants belonging to Euphorbiaceae (Acalypha padifolia Kunth), Salicaceae (Azara microphylla Hook. f.), Fabaceae (Inga spectabilis (Vahl) Willd. or I. edulis Mart.), Rhamnaceae (Colletia spinosissima J. F. Gmel.), Geraniaceae or Vivianiaceae (Rhynchotheca spinosa Ruiz & Pav.), and Asteraceae (Mutisia decurrens Cav.). All species treated in the paper are illustrated with photographs of the adults and genitalia, a distribution map, and also photographs of the leaf-mines and host plants when available.

scholarly journals Bioactive Secondary Metabolites of the Genus Diaporthe and Anamorph Phomopsis from Terrestrial and Marine Habitats and Endophytes: 2010–2019

2021 ◽  
Vol 9 (2) ◽  
pp. 217
Author(s):  
Tang-Chang Xu ◽  
Yi-Han Lu ◽  
Jun-Fei Wang ◽  
Zhi-Qiang Song ◽  
Ya-Ge Hou ◽  
...  
Keyword(s):  
Secondary Metabolites ◽  
Small Molecules ◽  
Host Plants ◽  
Plant Pathogens ◽  
Bioactive Metabolites ◽  
Drug Candidates ◽  
The Past ◽  
Marine Habitats ◽  
Bioactive Secondary Metabolites ◽  
Unidentified Species

The genus Diaporthe and its anamorph Phomopsis are distributed worldwide in many ecosystems. They are regarded as potential sources for producing diverse bioactive metabolites. Most species are attributed to plant pathogens, non-pathogenic endophytes, or saprobes in terrestrial host plants. They colonize in the early parasitic tissue of plants, provide a variety of nutrients in the cycle of parasitism and saprophytism, and participate in the basic metabolic process of plants. In the past ten years, many studies have been focused on the discovery of new species and biological secondary metabolites from this genus. In this review, we summarize a total of 335 bioactive secondary metabolites isolated from 26 known species and various unidentified species of Diaporthe and Phomopsis during 2010–2019. Overall, there are 106 bioactive compounds derived from Diaporthe and 246 from Phomopsis, while 17 compounds are found in both of them. They are classified into polyketides, terpenoids, steroids, macrolides, ten-membered lactones, alkaloids, flavonoids, and fatty acids. Polyketides constitute the main chemical population, accounting for 64%. Meanwhile, their bioactivities mainly involve cytotoxic, antifungal, antibacterial, antiviral, antioxidant, anti-inflammatory, anti-algae, phytotoxic, and enzyme inhibitory activities. Diaporthe and Phomopsis exhibit their potent talents in the discovery of small molecules for drug candidates.

Characterization, Pathogenicity, Phylogeny, and Comparative Genomic Analysis of Pseudomonas tolaasii Strains Isolated from Various Mushrooms in China

2021 ◽  
Author(s):  
Zhenghui Liu ◽  
Yitong Zhao ◽  
Frederick Leo Sossah ◽  
Benjamin Azu Okorley ◽  
Daniel G. Amoako ◽  
...  
Keyword(s):  
Antibiotic Resistance ◽  
Genomic Analysis ◽  
Gene Families ◽  
Effective Control ◽  
Economic Losses ◽  
Comparative Genomic ◽  
Bacterial Strains ◽  
Secretion Systems ◽  
Pseudomonas Tolaasii ◽  
Antimicrobial Resistance Genes

Since 2016, devastating bacterial blotch affecting the fruiting bodies of Agaricus bisporus, Cordyceps militaris, Flammulina filiformis, and Pleurotus ostreatus in China has caused severe economic losses. We isolated 102 bacterial strains and characterized them polyphasically. We identified the causal agent as Pseudomonas tolaasii and confirmed the pathogenicity of the strains. A host range test further confirmed the pathogen’s ability to infect multiple hosts. This is the first report in China of bacterial blotch in C. militaris caused by P. tolaasii. Whole-genome sequences were generated for three strains: Pt11 (6.48 Mb), Pt51 (6.63 Mb), and Pt53 (6.80 Mb), and pangenome analysis was performed with 13 other publicly accessible P. tolaasii genomes to determine their genetic diversity, virulence, antibiotic resistance, and mobile genetic elements. The pangenome of P. tolaasii is open, and many more gene families are likely to emerge with further genome sequencing. Multilocus sequence analysis using the sequences of four common housekeeping genes (glns, gyrB, rpoB, and rpoD) showed high genetic variability among the P. tolaasii strains, with 115 strains clustered into a monophyletic group. The P. tolaasii strains possess various genes for secretion systems, virulence factors, carbohydrate-active enzymes, toxins, secondary metabolites, and antimicrobial resistance genes that are associated with pathogenesis and adapted to different environments. The myriad of insertion sequences, integrons, prophages, and genome islands encoded in the strains may contribute to genome plasticity, virulence, and antibiotic resistance. These findings advance understanding of the determinants of virulence, which can be targeted for the effective control of bacterial blotch disease.

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