scholarly journals Genome Sequence of Striga asiatica Provides Insight into the Evolution of Plant Parasitism

2019 ◽  
Vol 29 (18) ◽  
pp. 3041-3052.e4 ◽  
Author(s):  
Satoko Yoshida ◽  
Seungill Kim ◽  
Eric K. Wafula ◽  
Jaakko Tanskanen ◽  
Yong-Min Kim ◽  
...  
Keyword(s):  
Genome Sequence ◽  
Striga Asiatica ◽  
Plant Parasitism ◽  
Insight Into

scholarly journals Genomic Characterization Provides an Insight into the Pathogenicity of the Poplar Canker Bacterium Lonsdalea populi

Genes ◽  
2021 ◽  
Vol 12 (2) ◽  
pp. 246
Author(s):  
Xiaomeng Chen ◽  
Rui Li ◽  
Yonglin Wang ◽  
Aining Li
Keyword(s):  
Genome Sequence ◽  
Extracellular Enzymes ◽  
De Novo ◽  
Whole Genome Sequence ◽  
Hybrid Poplars ◽  
A Genome ◽  
Conserved Genes ◽  
Genomic Characterization ◽  
Molecular Bases ◽  
Insight Into

An emerging poplar canker caused by the gram-negative bacterium, Lonsdalea populi, has led to high mortality of hybrid poplars Populus × euramericana in China and Europe. The molecular bases of pathogenicity and bark adaptation of L. populi have become a focus of recent research. This study revealed the whole genome sequence and identified putative virulence factors of L. populi. A high-quality L. populi genome sequence was assembled de novo, with a genome size of 3,859,707 bp, containing approximately 3434 genes and 107 RNAs (75 tRNA, 22 rRNA, and 10 ncRNA). The L. populi genome contained 380 virulence-associated genes, mainly encoding for adhesion, extracellular enzymes, secretory systems, and two-component transduction systems. The genome had 110 carbohydrate-active enzyme (CAZy)-coding genes and putative secreted proteins. The antibiotic-resistance database annotation listed that L. populi was resistant to penicillin, fluoroquinolone, and kasugamycin. Analysis of comparative genomics found that L. populi exhibited the highest homology with the L. britannica genome and L. populi encompassed 1905 specific genes, 1769 dispensable genes, and 1381 conserved genes, suggesting high evolutionary diversity and genomic plasticity. Moreover, the pan genome analysis revealed that the N-5-1 genome is an open genome. These findings provide important resources for understanding the molecular basis of the pathogenicity and biology of L. populi and the poplar-bacterium interaction.

scholarly journals Complete genome sequence of Arthrobacter sp. PAMC25564 and its comparative genome analysis for elucidating the role of CAZymes in cold adaptation

BMC Genomics ◽  
2021 ◽  
Vol 22 (1) ◽  
Author(s):  
So-Ra Han ◽  
Byeollee Kim ◽  
Jong Hwa Jang ◽  
Hyun Park ◽  
Tae-Jin Oh
Keyword(s):  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Cold Adaptation ◽  
Gc Content ◽  
Glycogen Metabolism ◽  
Extreme Environment ◽  
Circular Chromosome ◽  
Cold Regions ◽  
Insight Into

Abstract Background The Arthrobacter group is a known set of bacteria from cold regions, the species of which are highly likely to play diverse roles at low temperatures. However, their survival mechanisms in cold regions such as Antarctica are not yet fully understood. In this study, we compared the genomes of 16 strains within the Arthrobacter group, including strain PAMC25564, to identify genomic features that help it to survive in the cold environment. Results Using 16 S rRNA sequence analysis, we found and identified a species of Arthrobacter isolated from cryoconite. We designated it as strain PAMC25564 and elucidated its complete genome sequence. The genome of PAMC25564 is composed of a circular chromosome of 4,170,970 bp with a GC content of 66.74 % and is predicted to include 3,829 genes of which 3,613 are protein coding, 147 are pseudogenes, 15 are rRNA coding, and 51 are tRNA coding. In addition, we provide insight into the redundancy of the genes using comparative genomics and suggest that PAMC25564 has glycogen and trehalose metabolism pathways (biosynthesis and degradation) associated with carbohydrate active enzyme (CAZymes). We also explain how the PAMC26654 produces energy in an extreme environment, wherein it utilizes polysaccharide or carbohydrate degradation as a source of energy. The genetic pattern analysis of CAZymes in cold-adapted bacteria can help to determine how they adapt and survive in such environments. Conclusions We have characterized the complete Arthrobacter sp. PAMC25564 genome and used comparative analysis to provide insight into the redundancy of its CAZymes for potential cold adaptation. This provides a foundation to understanding how the Arthrobacter strain produces energy in an extreme environment, which is by way of CAZymes, consistent with reports on the use of these specialized enzymes in cold environments. Knowledge of glycogen metabolism and cold adaptation mechanisms in Arthrobacter species may promote in-depth research and subsequent application in low-temperature biotechnology.

scholarly journals The Gossypium stocksii genome as a novel resource for cotton improvement

2021 ◽  
Author(s):  
Corrinne E Grover ◽  
Daojun Yuan ◽  
Mark A Arick ◽  
Emma R Miller ◽  
Guanjing Hu ◽  
...  
Keyword(s):  
Genome Sequence ◽  
De Novo ◽  
Pest Resistance ◽  
Cotton Leaf ◽  
High Quality ◽  
Cotton Leaf Curl Virus ◽  
Cotton Species ◽  
Wild Cotton ◽  
Leaf Curl Virus ◽  
Insight Into

Abstract Cotton is an important textile crop whose gains in production over the last century have been challenged by various diseases. Because many modern cultivars are susceptible to several pests and pathogens, breeding efforts have included attempts to introgress wild, naturally resistant germplasm into elite lines. Gossypium stocksii is a wild cotton species native to Africa, which is part of a clade of vastly understudied species. Most of what is known about this species comes from pest resistance surveys and/or breeding efforts, which suggests that G. stocksii could be a valuable reservoir of natural pest resistance. Here we present a high-quality de novo genome sequence for G. stocksii. We compare the G. stocksii genome with resequencing data from a closely related, understudied species (G. somalense) to generate insight into the relatedness of these cotton species. Finally, we discuss the utility of the G. stocksii genome for understanding pest resistance in cotton, particularly resistance to cotton leaf curl virus.

scholarly journals Draft Genome Sequence of the Putative Marine Pathogen Aquimarina sp. Strain I32.4

2018 ◽  
Vol 6 (17) ◽  
Author(s):  
Hilary J. Ranson ◽  
Jason LaPorte ◽  
Edward Spinard ◽  
Andrei Y. Chistoserdov ◽  
Marta Gomez-Chiarri ◽  
...  
Keyword(s):  
Virulence Factors ◽  
Genome Sequence ◽  
Draft Genome ◽  
Homarus Americanus ◽  
Draft Genome Sequence ◽  
American Lobster ◽  
Content Type ◽  
Shell Disease ◽  
Insight Into

ABSTRACT Aquimarina sp. strain I32.4 (formerly Aquimarina sp. ‘ homaria ’) is a putative pathogen involved in epizootic shell disease in the American lobster ( Homarus americanus ). We report here the draft genome sequence for Aquimarina sp. strain I32.4 and describe virulence factors that may provide insight into its mechanism of pathogenicity.

scholarly journals Draft Genome Sequence of “ Candidatus Phytoplasma oryzae” Strain Mbita1, the Causative Agent of Napier Grass Stunt Disease in Kenya

2016 ◽  
Vol 4 (2) ◽  
Author(s):  
Anne Fischer ◽  
Ivette Santana-Cruz ◽  
Lillian Wambua ◽  
Cassandra Olds ◽  
Charles Midega ◽  
...  
Keyword(s):  
Genome Sequence ◽  
Agricultural Production ◽  
Plant Pathogens ◽  
Genomic Organization ◽  
Draft Genome ◽  
Napier Grass ◽  
Eastern Africa ◽  
Draft Genome Sequence ◽  
Economic Losses ◽  
Insight Into

Phytoplasmas are bacterial plant pathogens with devastating impact on agricultural production worldwide. In eastern Africa, Napier grass stunt disease causes serious economic losses in the smallholder dairy industry. This draft genome sequence of “ Candidatus Phytoplasma oryzae” strain Mbita1 provides insight into its genomic organization and the molecular basis of pathogenicity.

scholarly journals Complete Genome Sequence of Caulobacter crescentus Bacteriophage φCbK

2012 ◽  
Vol 86 (18) ◽  
pp. 10234-10235 ◽  
Author(s):  
Gaël Panis ◽  
Christophe Lambert ◽  
Patrick H. Viollier
Keyword(s):  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Caulobacter Crescentus ◽  
Content Type ◽  
Functional Studies ◽  
Bacterial Cell Cycle ◽  
Potential Interactions ◽  
Complete Genome Analysis ◽  
Insight Into

φCbK is a B3 morphotype bacteriophage of theSiphoviridaefamily that infectsCaulobacter crescentus, the preeminent model system for bacterial cell cycle studies. The last 4 decades of research with φCbK as a genetic and cytological tool to study the biology of the host warrant an investigation of the phage genome composition. Herein, we report the complete genome sequence of φCbK and highlight unusual features that emerged from its annotation. The complete genome analysis of the φCbK phage provides new insight into its characteristics and potential interactions with itsCaulobacter crescentushost, setting the stage for future functional studies with φCbK.

scholarly journals Draft Genome Sequence of Enterobacter sp. Strain A8, a Carbazole-Degrading Bacterium

2019 ◽  
Vol 8 (18) ◽  
Author(s):  
Nidhi Gupta ◽  
Kelly A. Skinner ◽  
Samiya Khan ◽  
Janaka N. Edirisinghe ◽  
Christopher S. Henry
Keyword(s):  
Genome Sequence ◽  
Aromatic Compounds ◽  
Draft Genome ◽  
Draft Genome Sequence ◽  
Degrading Bacterium ◽  
Insight Into

We present here the draft genome sequence of a carbazole-degrading Enterobacter species. The draft genome sequence will provide insight into various genes involved in the degradation of carbazole and other related aromatic compounds.

scholarly journals Complete Genome Sequence of Pontibacter akesuensis Strain AKS 1 T , Which Exhibits Robust Nutrient Metabolism in Harsh Environments

2016 ◽  
Vol 4 (5) ◽  
Author(s):  
Yang Wang ◽  
Kaiyong He ◽  
Yongzhong Jiang ◽  
Jiate Shen ◽  
Bo Yu
Keyword(s):  
Solar Radiation ◽  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Harsh Environments ◽  
Genetic Determinants ◽  
Nutrient Metabolism ◽  
Bacterial Genetic ◽  
Insight Into

Pontibacter akesuensis strain AKS 1 T was found in Akesu, Xinjiang Province, China, and exhibits the extraordinary ability to metabolize various substrates and is resistant to solar radiation. To gain insight into the bacterial genetic determinants for this adaptability, we report the complete genome sequence of strain AKS 1 T .

scholarly journals Complete Genome Sequence of Burkholderia cenocepacia CR318, a Phosphate-Solubilizing Bacterium Isolated from Corn Root

2017 ◽  
Vol 5 (23) ◽  
Author(s):  
Filip Zekic ◽  
Brian Weselowski ◽  
Ze-Chun Yuan
Keyword(s):  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Phosphate Solubilization ◽  
Burkholderia Cenocepacia ◽  
Ecological Sustainability ◽  
Content Type ◽  
Phosphate Solubilizing ◽  
Circular Chromosomes ◽  
Insight Into

ABSTRACT Here, we report the complete genome sequence of the phosphate-solubilizing bacterium Burkholderia cenocepacia CR318, consisting of three circular chromosomes of 3,511,146 bp, 3,097,552 bp, and 1,056,069 bp. The data presented will facilitate further insight into the mechanisms of phosphate solubilization and its application for agricultural and ecological sustainability.

scholarly journals Draft Genome Sequence of Hydrogenibacillus schlegelii MA48, a Deep-Branching Member of the Bacilli Class of Firmicutes

2017 ◽  
Vol 5 (3) ◽  
Author(s):  
Allison Maker ◽  
James Hemp ◽  
Laura A. Pace ◽  
Lewis M. Ward ◽  
Woodward W. Fischer
Keyword(s):  
Genome Sequence ◽  
Draft Genome ◽  
Draft Genome Sequence ◽  
Aerobic Respiration ◽  
Facultative Anaerobe ◽  
Content Type ◽  
Insight Into

ABSTRACT We report here the draft genome sequence of Hydrogenibacillus schlegelii MA48, a thermophilic facultative anaerobe that can oxidize hydrogen aerobically. H. schlegelii MA48 belongs to a deep-branching clade of the Bacilli class and provides important insight into the acquisition of aerobic respiration within the Firmicutes phylum.

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