scholarly journals Complete Genome Sequences of the Plant Pathogens Dickeya solani RNS 08.23.3.1.A and Dickeya dianthicola RNS04.9

2018 ◽  
Vol 6 (4) ◽  
Author(s):  
Slimane Khayi ◽  
Pauline Blin ◽  
Teik Min Chong ◽  
Kévin Robic ◽  
Kok-Gan Chan ◽  
...  
Keyword(s):  
Complete Genome ◽  
Plant Pathogens ◽  
Bacterial Pathogens ◽  
Ornamental Plants ◽  
Soft Rot ◽  
Genome Sequences ◽  
Wide Range ◽  
Dickeya Solani

ABSTRACT Dickeya spp. are bacterial pathogens causing soft-rot and blackleg diseases on a wide range of ornamental plants and crops. In this paper, we announce the PacBio complete genome sequences of the plant pathogens Dickeya solani RNS 08.23.3.1.A (PRI3337) and Dickeya dianthicola RNS04.9.

scholarly journals Complete Chromosome and Plasmid Sequences of Two Plant Pathogens, Dickeya solani Strains D s0432-1 and PPO 9019

2018 ◽  
Vol 6 (17) ◽  
Author(s):  
Slimane Khayi ◽  
Pauline Blin ◽  
Teik Min Chong ◽  
Kok-Gan Chan ◽  
Denis Faure
Keyword(s):  
Solanum Tuberosum ◽  
Complete Genome ◽  
Plant Pathogens ◽  
Bacterial Pathogens ◽  
Genetic Element ◽  
Genome Sequences ◽  
Content Type ◽  
Dickeya Solani

ABSTRACT Dickeya solani species are emerging bacterial pathogens of Solanum tuberosum . Here, we announce the complete genome sequences of two strains, Dickeya solani D s0432-1 and PPO 9019. Strain PPO 9019 represents the first described member of the genus Dickeya with an extrachromosomal genetic element.

scholarly journals Colletotrichum spp. causing anthracnose on ornamental plants in northern Italy

2020 ◽  
Author(s):  
Vladimiro Guarnaccia ◽  
Ilaria Martino ◽  
Giovanna Gilardi ◽  
Angelo Garibaldi ◽  
M. Lodovica Gullino
Keyword(s):  
Plant Pathogens ◽  
Fruits And Vegetables ◽  
Ornamental Plants ◽  
Northern Italy ◽  
Liquidambar Styraciflua ◽  
Cyclamen Persicum ◽  
Important Species ◽  
Wide Range ◽  
Ceanothus Thyrsiflorus ◽  
Mahonia Aquifolium

Abstract Species of Colletotrichum are considered among the most important plant pathogens, saprobes and endophytes on a wide range of ornamentals, fruits and vegetables. Several Colletotrichum species have been reported in nurseries and public or private gardens in northern Italy. In this study, the occurrence, diversity and pathogenicity of Colletotrichum spp. associated with several ornamental hosts was explored. Survey were carried out during the 2013–2019 period in Piedmont, Italy. A total of 22 Colletotrichum isolates were collected from symptomatic leaves and stems of two Campanula spp., Ceanothus thyrsiflorus, Coreopsis lanceolata, Cyclamen persicum, Hydrangea paniculata, Liquidambar styraciflua, Mahonia aquifolium and Rhyncospermum jasminoides. A multi-locus phylogeny was established based on the basis of three genomic loci (gapdh, act and tub2). The pathogenicity of selected, representative isolates was tested. Colletotrichum isolates were identified as members of four important species complexes: Acutatum, Gloeosporioides, Dematium and Destructivum. Colletotrichum fioriniae, C. nymphaeae and C. fuscum were found in association with leaf lesions of Mahonia aquifolium, Campanula rapunculoides and Coreopsis lanceolata, respectively. Colletotrichum lineola, C. grossum and C. cigarro were isolated from Campanula trachelium, Rhyncospermum jasminoides and Liquidambar styraciflua, respectively. Colletotrichum fructicola was found to be responsible of anthracnose of Ceanothus thyrsiflorus, Hydrangea paniculata, Cyclamen persicum and Liquidambar styraciflua. All the tested isolates were pathogenic and reproduced identical symptoms to those observed in private gardens and nurseries. The present study improves our understanding of Colletotrichum spp. associated with different ornamental hosts and provides useful information for an effective disease management programme.

scholarly journals Potential Control of Potato Soft Rot Disease by the Obligate Predators Bdellovibrio and Like Organisms

2020 ◽  
Vol 86 (6) ◽  
Author(s):  
Daniel Youdkes ◽  
Yael Helman ◽  
Saul Burdman ◽  
Ofra Matan ◽  
Edouard Jurkevitch
Keyword(s):  
Plant Pathogens ◽  
Soft Rot ◽  
Plant Diseases ◽  
Predator Population ◽  
Bacterial Soft Rot ◽  
Population Parameters ◽  
Live Prey ◽  
Content Type ◽  
Wide Range

ABSTRACT Bacterial soft rot diseases caused by Pectobacterium spp. and Dickeya spp. affect a wide range of crops, including potatoes, a major food crop. As of today, farmers mostly rely on sanitary practices, water management, and plant nutrition for control. We tested the bacterial predators Bdellovibrio and like organisms (BALOs) to control potato soft rot. BALOs are small, motile predatory bacteria found in terrestrial and aquatic environments. They prey on a wide range of Gram-negative bacteria, including animal and plant pathogens. To this end, BALO strains HD100, 109J, and a ΔmerRNA derivative of HD100 were shown to efficiently prey on various rot-causing strains of Pectobacterium and Dickeya solani. BALO control of maceration caused by a highly virulent strain of Pectobacterium carotovorum subsp. brasilense was then tested in situ using a potato slice assay. All BALO strains were highly effective at reducing disease, up to complete prevention. Effectivity was concentration dependent, and BALOs applied before P. carotovorum subsp. brasilense inoculation performed significantly better than those applied after the disease-causing agent, maybe due to in situ consumption of glucose by the prey, as glucose metabolism by live prey bacteria was shown to prevent predation. Dead predators and the supernatant of BALO cultures did not significantly prevent maceration, indicating that predation was the major mechanism for the prevention of the disease. Finally, plastic resistance to predation was affected by prey and predator population parameters, suggesting that population dynamics affect prey response to predation. IMPORTANCE Bacterial soft rot diseases caused by Pectobacterium spp. and Dickeya spp. are among the most important plant diseases caused by bacteria. Among other crops, they inflict large-scale damage to potatoes. As of today, farmers have few options to control them. The bacteria Bdellovibrio and like organisms (BALOs) are obligate predators of bacteria. We tested their potential to prey on Pectobacterium spp. and Dickeya spp. and to protect potato. We show that different BALOs can prey on soft rot-causing bacteria and prevent their growth in situ, precluding tissue maceration. Dead predators and the supernatant of BALO cultures did not significantly prevent maceration, showing that the effect is due to predation. Soft rot control by the predators was concentration dependent and was higher when the predator was inoculated ahead of the prey. As residual prey remained, we investigated what determines their level and found that initial prey and predator population parameters affect prey response to predation.

scholarly journals Species Diversity in Colletotrichum Causing Anthracnose of Aromatic and Ornamental Lamiaceae in Italy

Agronomy ◽  
2019 ◽  
Vol 9 (10) ◽  
pp. 613 ◽  
Author(s):  
Guarnaccia ◽  
Gilardi ◽  
Martino ◽  
Garibaldi ◽  
Gullino
Keyword(s):  
Host Plants ◽  
Plant Pathogens ◽  
Ornamental Plants ◽  
Management Program ◽  
Origanum Vulgare ◽  
Colletotrichum Species ◽  
Species Complexes ◽  
Major Species ◽  
Wide Range ◽  
Colletotrichum Spp

Species of Colletotrichum are considered important plant pathogens, saprobes, and endophytes on a wide range of host plants. In Italy, several Colletotrichum species have been reported in glasshouse environments. In this study, we have explored the occurrence, diversity, and pathogenicity of Colletotrichum spp. associated with aromatic and ornamental plants belonging to the Lamiaceae family. Surveys were carried out during the 2011–2018 period in Liguria and Piedmont, Italy. A total of 19 Colletotrichum isolates were collected from symptomatic leaves and seeds of Ocimum basilicum (basil), Origanum vulgare (oregano) and different Salvia spp. A multi-locus phylogeny was established based on the basis of four genomic loci (ITS, GAPDH, ACT and TUB2). The aggressiveness of selected, representative isolates were tested. Colletotrichum isolates were identified as being members of three major species complexes: C. acutatum, C. destructivum, and C. gloeosporioides. Colletotrichum fioriniae, C. bryonicola, and C. fructicola were found in association with leaf lesions on Salvia leucantha, S. nemorosa, and S. greggii, respectively. Colletotrichum nigrum was isolated from twig lesions of S. greggii. Moreover, C. fioriniae and C. ocimi were found to be responsible for causing leaf anthracnose of oregano and basil, respectively. All the tested isolates were pathogenic and reproduced identical symptoms to those observed in commercial glasshouses. The present study improves our understanding of Colletotrichum species associated with several hosts belonging to the Lamiaceae family, which are cultivated extensively throughout Italy for different purpose, and provides information that may be useful for an effective disease management program.

scholarly journals Identification, Characterization, and Genomic Analysis of Novel Serratia Temperate Phages from a Gold Mine

2020 ◽  
Vol 21 (18) ◽  
pp. 6709
Author(s):  
Katarzyna Bujak ◽  
Przemyslaw Decewicz ◽  
Jerzy Kaminski ◽  
Monika Radlinska
Keyword(s):  
Complete Genome ◽  
Genomic Analysis ◽  
Ecological Niches ◽  
Gold Mine ◽  
Genome Sequences ◽  
Similarity Network ◽  
Comparative Analyses ◽  
Wide Range ◽  
High Diversity

Bacteria of the genus Serratia inhabit a variety of ecological niches like water, soil, and the bodies of animals, and have a wide range of lifestyles. Currently, the complete genome sequences of 25 Serratia phages are available in the NCBI database. All of them were isolated from nutrient-rich environments like sewage, with the use of clinical Serratia strains as hosts. In this study, we identified a novel Serratia myovirus named vB_SspM_BZS1. Both the phage and its host Serratia sp. OS31 were isolated from the same oligotrophic environment, namely, an abandoned gold mine (Zloty Stok, Poland). The BZS1 phage was thoroughly characterized here in terms of its genomics, morphology, and infection kinetics. We also demonstrated that Serratia sp. OS31 was lysogenized by mitomycin-inducible siphovirus vB_SspS_OS31. Comparative analyses revealed that vB_SspM_BZS1 and vB_SspS_OS31 were remote from the known Serratia phages. Moreover, vB_SspM_BZS1 was only distantly related to other viruses. However, we discovered similar prophage sequences in genomes of various bacteria here. Additionally, a protein-based similarity network showed a high diversity of Serratia phages in general, as they were scattered across nineteen different clusters. In summary, this work broadened our knowledge on the diverse relationships of Serratia phages.

scholarly journals Draft Genome Sequences of Dickeya sp. Isolates B16 (NIB Z 2098) and S1 (NIB Z 2099) Causing Soft Rot of Phalaenopsis Orchids

2015 ◽  
Vol 3 (5) ◽  
Author(s):  
Špela Alič ◽  
Tina Naglič ◽  
Pablo Llop ◽  
Nataša Toplak ◽  
Simon Koren ◽  
...  
Keyword(s):  
Draft Genome ◽  
Ornamental Plants ◽  
Soft Rot ◽  
Genome Sequences

The genus Dickeya contains bacteria causing soft rot of economically important crops and ornamental plants. Here, we report the draft genome sequences of two Dickeya sp. isolates from rotted leaves of Phalaenopsis orchids.

scholarly journals The complete genome sequences of 22 parrot species (Psittaciformes, Aves)

F1000Research ◽  
2020 ◽  
Vol 9 ◽  
pp. 1318
Author(s):  
Taylor Hains ◽  
Kathleen O'Neill ◽  
Jafet Velez ◽  
Nancy Speed ◽  
Susan Clubb ◽  
...  
Keyword(s):  
Complete Genome ◽  
Genome Sequences ◽  
Species Identity ◽  
Pet Trade ◽  
Animal Products ◽  
Myiopsitta Monachus ◽  
Wide Range ◽  
Nymphicus Hollandicus ◽  
Body Sizes ◽  
Parrot Species

The parrots (Psittaciformes, Aves) are a group of colorful, intelligent, long-lived birds with a wide range of body sizes and plumage colors and patterns.  One third of the parrot species is threatened with extinction due to habitat loss and the pet trade, a larger percentage than any other comparable bird order.  We present the complete genome sequences of 22 species of parrots from 14 genera and 3 families: Anodorhynchus hyacinthinus, Ara ararauna, Ara chloropterus, Ara glaucogularis, Ara militaris, Aratinga solstitialis, Aratinga weddellii, Cacatua leadbeateri, Eclectus roratus, Eupsittula pertinax, Guaruba guarouba, Lorius garrulus, Myiopsitta monachus, Nymphicus hollandicus, Pionus senilis, Psittacus erithacus, Psittacus timneh, Psitteuteles goldiei, Pyrrhura frontalis, Pyrrhura griseipectus, Pyrrhura molinae, Pyrrhura perlata.  Genomic data can be used to better understand species identity, hybridization, genetic diversity, and identification of animal products possibly derived from endangered species.

scholarly journals Complete Genome Sequences of Four Natural Pseudomonas Isolates That Catabolize a Wide Range of Aromatic Compounds Relevant to Lignin Valorization

2020 ◽  
Vol 9 (49) ◽  
Author(s):  
E. Anne Hatmaker ◽  
Gerald N. Presley ◽  
Olivia N. Cannon ◽  
Joshua K. Michener ◽  
Adam M. Guss ◽  
...  
Keyword(s):  
Phenolic Compounds ◽  
Aromatic Compounds ◽  
Complete Genome ◽  
Soil Microorganisms ◽  
Value Added ◽  
Genome Sequences ◽  
Lignin Valorization ◽  
Wide Range

ABSTRACT Many soil microorganisms have evolved catabolic strategies to utilize phenolic compounds arising from depolymerized lignin. We report the complete genome sequences of four Pseudomonas sp. isolates that demonstrated robust growth on a wide range of aromatic monomers and dimers that are relevant to the valorization of lignin into value-added chemicals.

scholarly journals May the phage be with you? Prophage-like elements in the genomes of Soft Rot Pectobacteriaceae (Pectobacterium spp. and Dickeya spp.)

2018 ◽  
Author(s):  
Robert Czajkowski
Keyword(s):  
Plant Species ◽  
Complete Genome ◽  
Driving Force ◽  
Soft Rot ◽  
Bacterial Virulence ◽  
The Novel ◽  
Genome Sequences ◽  
Phenotypic Properties ◽  
Ecological Fitness ◽  
Number Of Plant Species

ABSTRACTSoft Rot Pectobacteriaceae (SRP; Pectobacterium spp. and Dickeya spp., formerly known as pectinolytic Erwinia spp.) are necrotrophic bacterial pathogens infecting large number of plant species worldwide including agriculturally-important crops. Regardless of the SRP importance in agriculture, little is known about the bacteriophages infecting Pectobacterium spp. and Dickeya spp. and even less about prophages present in SRP genomes. Prophages are recognized as factors underlying bacterial virulence, genomic diversification and ecological fitness and have association with the novel phenotypic properties of bacterial hosts. Likewise, they are recognized as a driving force of bacterial evolution. The aim of this study was to analyze Pectobacterium spp. and Dickeya spp. complete genome sequences downloaded from GenBank (NCBI) for the presence of prophage sequences following their identification and (comparative) characterization with the main focus on current and upcoming perspectives in that field.

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