scholarly journals Draft Genome Sequences of Six Bacillus Strains and One Brevibacillus Strain Isolated from the Rhizosphere of Perennial Ryegrass (Lolium perenne)

2019 ◽  
Vol 8 (4) ◽  
Author(s):  
Zhibo Li ◽  
Chunxu Song ◽  
Anne de Jong ◽  
Oscar P. Kuipers
Keyword(s):  
Lolium Perenne ◽  
Perennial Ryegrass ◽  
Plant Pathogens ◽  
Draft Genome ◽  
Gene Clusters ◽  
Antagonistic Activity ◽  
Genome Sequences ◽  
Modes Of Action ◽  
Bacillus Strains

Seven strains of endospore-forming bacteria with antagonistic activity against a series of plant pathogens were sequenced in order to investigate their antimicrobial gene clusters and antimicrobial modes of action. The selected strains include six Bacillus strains and one Brevibacillus strain.

scholarly journals Draft Genome Sequences of Endophytic Pseudomonas spp. Isolated from Grapevine Tissue and Antagonistic to Grapevine Trunk Disease Pathogens

2019 ◽  
Vol 8 (26) ◽  
Author(s):  
Jennifer Niem ◽  
Regina Billones-Baaijens ◽  
Sandra Savocchia ◽  
Benjamin Stodart
Keyword(s):  
Plant Pathogens ◽  
Draft Genome ◽  
Gene Clusters ◽  
Antagonistic Activity ◽  
Genome Sequences ◽  
Putative Gene ◽  
Content Type ◽  
Trunk Disease ◽  
Grapevine Trunk Disease ◽  
Biocontrol Activity

Endophytic strains of Pseudomonas were isolated from grapevine tissues and exhibited antagonistic activity against several grapevine trunk disease pathogens. The draft genome sequences of the four strains revealed the presence of putative gene clusters that may impart biocontrol activity against plant pathogens.

scholarly journals Draft Genome Sequences of Fungus Aspergillus calidoustus

2016 ◽  
Vol 4 (2) ◽  
Author(s):  
Fabian Horn ◽  
Jörg Linde ◽  
Derek J. Mattern ◽  
Grit Walther ◽  
Reinhard Guthke ◽  
...  
Keyword(s):  
Secondary Metabolite ◽  
Genome Sequence ◽  
Functional Annotation ◽  
Draft Genome ◽  
Genome Mining ◽  
Gene Clusters ◽  
Draft Genome Sequence ◽  
Genome Sequences

Here, we report the draft genome sequence of Aspergillus calidoustus (strain SF006504) . The functional annotation of A. calidoustus predicts a relatively large number of secondary metabolite gene clusters. The presented genome sequence builds the basis for further genome mining.

scholarly journals Draft Genome Sequences of Acinetobacter and Bacillus Strains Isolated from Spacecraft-Associated Surfaces

2018 ◽  
Vol 6 (6) ◽  
pp. e01554-17
Author(s):  
Arman Seuylemezian ◽  
Parag Vaishampayan ◽  
Kerry Cooper ◽  
Kasthuri Venkateswaran
Keyword(s):  
Uv Radiation ◽  
Draft Genome ◽  
Genome Sequences ◽  
Associated Surfaces ◽  
Bacillus Strains

ABSTRACT We report here the draft genome sequences of four strains isolated from spacecraft-associated surfaces exhibiting increased resistance to stressors such as UV radiation and exposure to H2O2. The draft genomes of strains 1P01SCT, FO-92T, 50v1, and 2P01AA had sizes of 5,500,894 bp, 4,699,376 bp, 3,174,402 bp, and 4,328,804 bp, respectively.

scholarly journals A Rare Thioquinolobactin Siderophore Present in a Bioactive Pseudomonas sp. DTU12.1

2019 ◽  
Vol 11 (12) ◽  
pp. 3529-3533
Author(s):  
Pavelas Sazinas ◽  
Morten Lindqvist Hansen ◽  
May Iren Aune ◽  
Marie Højmark Fischer ◽  
Lars Jelsbak
Keyword(s):  
Gene Cluster ◽  
Secondary Metabolite ◽  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Plant Pathogens ◽  
Gene Clusters ◽  
Fungal Species ◽  
Antagonistic Activity ◽  
Evolutionary Origins

Abstract Many of the soil-dwelling Pseudomonas species are known to produce secondary metabolite compounds, which can have antagonistic activity against other microorganisms, including important plant pathogens. It is thus of importance to isolate new strains of Pseudomonas and discover novel or rare gene clusters encoding bioactive products. In an effort to accomplish this, we have isolated a bioactive Pseudomonas strain DTU12.1 from leaf-covered soil in Denmark. Following genome sequencing with Illumina and Oxford Nanopore technologies, we generated a complete genome sequence with the length of 5,943,629 base pairs. The DTU12.1 strain contained a complete gene cluster for a rare thioquinolobactin siderophore, which was previously described as possessing bioactivity against oomycetes and several fungal species. We placed the DTU12.1 strain within Pseudomonas gessardii subgroup of fluorescent pseudomonads, where it formed a distinct clade with other Pseudomonas strains, most of which also contained a complete thioquinolobactin gene cluster. Only two other Pseudomonas strains were found to contain the gene cluster, though they were present in a different phylogenetic clade and were missing a transcriptional regulator of the whole cluster. We show that having the complete genome sequence and establishing phylogenetic relationships with other strains can enable us to start evaluating the distribution and evolutionary origins of secondary metabolite clusters.

scholarly journals Draft Genome Sequences of Nine Bacillus Strains and Two Weizmannia Strains Isolated from Live Dietary Supplements and a Cultured Food Product

2022 ◽  
Author(s):  
Tammy J. Barnaba ◽  
Jayanthi Gangiredla ◽  
Mark K. Mammel ◽  
David W. Lacher ◽  
Carmen Tartera
Keyword(s):  
Dietary Supplements ◽  
Intestinal Tract ◽  
Draft Genome ◽  
Health Benefits ◽  
Food Product ◽  
Acidic Environment ◽  
Genome Sequences ◽  
Bacillus Strains

We present the genome sequences of nine Bacillus isolates and two Weizmannia isolates from 10 different dietary supplements and one cultured food product. Strains of these species have been associated with health benefits when ingested by humans, due to their ability to survive the stomach’s acidic environment and colonize the intestinal tract.

scholarly journals Analysis of Draft Genome Resources of Thirty-Three Canadian Strains of Pseudomonas syringae pv. tomato isolated between 1992 and 2008 Reveals achromobactin virulence cluster that is absent in the reference strain DC3000

2021 ◽  
Author(s):  
James Tambong ◽  
Renlin Xu ◽  
Diane Cuppels ◽  
Julie T Chapados ◽  
suzanne Gerdis ◽  
...  
Keyword(s):  
Pseudomonas Syringae ◽  
Draft Genome ◽  
Genome Mining ◽  
Gene Clusters ◽  
Whole Genome Sequence ◽  
Whole Genome ◽  
Genome Sequences ◽  
Protein Coding ◽  
Genome Data ◽  
Bacterial Speck Disease

Pseudomonas syringae pv. tomato is the causal agent of bacterial speck disease of field and greenhouse tomato plants. Only one Canadian whole genome sequence of this economically important pathogen is publicly available in NCBI GenBank. Here, we report 33 whole genome sequences of Canadian strains of P. syringae pv. tomato isolated in Ontario, Canada, between 1992 and 2008. The genome sequences exhibited average nucleotide identity values of 98.64-98.72 % with P. syringae pv. tomato ICMP 2844PT and DC3000, validating the taxonomic standing of these Canadian strains. The genome sizes ranged from 6.20-6.39 Mbp with G+C content of 58.6% and comprised 5,889-6,166 protein-coding sequences (CDSs). The strains had pan- and core-genomes of 6808 and 4,993 gene clusters, respectively. Genome mining of the strains for virulence factors identified typical adherence genes, proteins related to antiphagocytosis, secretion system apparatuses and effectors. Also, partial or complete achromobactin biosynthetic cluster and iron transport genes were identified in all the Canadian strains but absent in P. syringae pv. tomato DC3000 or ICMP 2844 (pathotype). These new whole genome data of Canadian strains of P. syringae pv. tomato could be useful resources in understanding the evolution of this pathogen.

scholarly journals Whole genome sequences of the raspberry and strawberry pathogens Phytophthora rubi and P. fragariae

2017 ◽  
Author(s):  
Javier F. Tabima ◽  
Brent A. Kronmiller ◽  
Caroline M. Press ◽  
Brett M. Tyler ◽  
Inga A. Zasada ◽  
...  
Keyword(s):  
Plant Pathogens ◽  
Draft Genome ◽  
Host Adaptation ◽  
Economic Importance ◽  
Whole Genome ◽  
Genome Sequences ◽  
Plant Host

AbstractPhytophthora rubi and P. fragariae are two closely related oomycete plant pathogens that exhibit strong morphological and physiological similarities, but are specialized to infect different hosts of economic importance, namely raspberry and strawberry. Here, we report the draft genome sequences of these two Phytophthora species as a first step towards understanding the genomic processes underlying plant host adaptation in these pathogens.

scholarly journals Whole Genome Sequences of the Raspberry and Strawberry Pathogens Phytophthora rubi and P. fragariae

2017 ◽  
Vol 30 (10) ◽  
pp. 767-769 ◽  
Author(s):  
Javier F. Tabima ◽  
Brent A. Kronmiller ◽  
Caroline M. Press ◽  
Brett M. Tyler ◽  
Inga A. Zasada ◽  
...  
Keyword(s):  
Plant Pathogens ◽  
Draft Genome ◽  
Host Adaptation ◽  
Phytophthora Species ◽  
Economic Importance ◽  
Whole Genome ◽  
Genome Sequences ◽  
Plant Host

Phytophthora rubi and P. fragariae are two closely related oomycete plant pathogens that exhibit strong morphological and physiological similarities but are specialized to infect different hosts of economic importance, namely, raspberry and strawberry. Here, we report the draft genome sequences of these two Phytophthora species as a first step toward understanding the genomic processes underlying plant host adaptation in these pathogens.

scholarly journals Draft Genome Sequences of Cyclodextrin-Producing Alkaliphilic Bacillus Strains JCM 19045, JCM 19046, and JCM 19047

2014 ◽  
Vol 2 (2) ◽  
Author(s):  
T. Kudo ◽  
K. Sakamoto ◽  
M. Akinaga ◽  
A. Kawauchi ◽  
T. Nakahara ◽  
...  
Keyword(s):  
Draft Genome ◽  
Genome Sequences ◽  
Alkaliphilic Bacillus ◽  
Bacillus Strains

scholarly journals Streptomyces tardus sp. nov.: A Slow-Growing Actinobacterium Producing Candicidin, Isolated From Sediments of the Trondheim Fjord

2021 ◽  
Vol 12 ◽  
Author(s):  
Stanislava Králová ◽  
Megan Sandoval-Powers ◽  
Dorelle V. Fawwal ◽  
Kristin F. Degnes ◽  
Anna Sofia Lewin ◽  
...  
Keyword(s):  
Plant Pathogens ◽  
Phylogenetic Analyses ◽  
Draft Genome ◽  
Gene Clusters ◽  
Diaminopimelic Acid ◽  
Antifungal Compound ◽  
Marine Actinobacteria ◽  
Pathogenic Yeast ◽  
Taxonomic Novelty ◽  
Slow Growing

Marine environments are home to an extensive number of microorganisms, many of which remain unexplored for taxonomic novelty and functional capabilities. In this study, a slow-growing Streptomyces strain expressing unique genomic and phenotypic characteristics, P38-E01T, was described using a polyphasic taxonomic approach. This strain is part of a collection of over 8,000 marine Actinobacteria isolates collected in the Trondheim fjord of Norway by SINTEF Industry (Trondheim, Norway) and the Norwegian University of Science and Technology (NTNU, Trondheim, Norway). Strain P38-E01T was isolated from the sediments of the Trondheim fjord, and phylogenetic analyses affiliated this strain with the genus Streptomyces, but it was not closely affiliated with other described species. The closest related type strains were Streptomyces daliensis YIM 31724T (98.6%), Streptomyces rimosus subsp. rimosus ATCC 10970T (98.4%), and Streptomyces sclerotialus NRRL ISP-5269T (98.3%). Predominant fatty acids were C16:0 iso, C16:0, and Summed Feature 3, and the predominant respiratory quinones were MK-10(H6), MK-10(H4), and MK9(H4). The main polar lipids were identified as diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, and phosphoglycolipid. The whole-cell sugars were glucose, ribose, and in minor amounts, mannose. The cell wall peptidoglycan contained LL-diaminopimelic acid. The draft genome has a size of 6.16 Mb, with a %G + C content of 71.4% and is predicted to contain at least 19 biosynthetic gene clusters encoding diverse secondary metabolites. Strain P38-E01T was found to inhibit the growth of the pathogenic yeast Candida albicans ATCC 90028 and a number of Gram-positive bacterial human and plant pathogens. Metabolites extracted from cultures of P38-E01T were analyzed by mass spectrometry, and it was found that the isolate produced the antifungal compound candicidin. Phenotypic and chemotaxonomic signatures, along with phylogenetic analyses, distinguished isolate P38-E01T from its closest neighbors; thus, this isolate represents a novel species of the genus Streptomyces for which the name Streptomyces tardus sp. nov. (P38-E01T = CCM 9049T = DSM 111582T) is proposed.

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