scholarly journals Genome sequence resource for Stagonosporopsis cucurbitacearum, a cause of gummy stem blight disease of watermelon

2021 ◽  
Author(s):  
Fahao Wang ◽  
Jiahui Qi ◽  
Miao Tian ◽  
Yizhou Gao ◽  
Xiaohui Xiong ◽  
...  
Keyword(s):  
Genome Sequence ◽  
Related Species ◽  
Southern China ◽  
Gene Prediction ◽  
Pathogenic Mechanism ◽  
Whole Genome Sequence ◽  
Whole Genome ◽  
Stem Blight ◽  
Gummy Stem Blight ◽  
Blight Disease

Gummy stem blight (GSB), which is caused by three related species of Stagonosporopsis, is a worldwide devastating disease of cucurbit crops including watermelon. Previously S. cucurbitacearum was reported to be the major fungal cause of watermelon GSB in Southern China, where it causes a significant decrease in watermelon yield. Here, we present the draft whole genome sequence, gene prediction and annotation of S. cucurbitacearum strain DBTL4, isolated from diseased watermelon plants. To our knowledge, this is the first publicly available genome sequence of this species, and knowledge of this genome sequence will help further understand the pathogenic mechanism of S. cucurbitacearum to cucurbit plants.

scholarly journals Genome Sequence Data of the Soybean Pathogen Stagonosporopsis vannaccii: A Resource for Studies on Didymellaceae Evolution

2020 ◽  
Vol 33 (8) ◽  
pp. 1022-1024
Author(s):  
Giovanni Cafà ◽  
Thaís Regina Boufleur ◽  
Renata Rebellato Linhares de Castro ◽  
Nelson Sidnei Massola ◽  
Riccardo Baroncelli
Keyword(s):  
Comparative Genomics ◽  
Genome Sequence ◽  
Plant Pathogens ◽  
Sequence Data ◽  
Gene Prediction ◽  
Whole Genome Sequence ◽  
Future Research ◽  
Whole Genome ◽  
Genome Sequence Data ◽  
Associated Species

The genus Stagonosporopsis is classified within the Didymellaceae family and has around 40 associated species. Among them, several species are important plant pathogens responsible for significant losses in economically important crops worldwide. Stagonosporopsis vannaccii is a newly described species pathogenic to soybean. Here, we present the draft whole-genome sequence, gene prediction, and annotation of S. vannaccii isolate LFN0148 (also known as IMI 507030). To our knowledge, this is the first genome sequenced of this species and represents a new useful source for future research on fungal comparative genomics studies.

scholarly journals The complete genome sequence of Stevia rebaudiana, the Sweetleaf

F1000Research ◽  
2020 ◽  
Vol 9 ◽  
pp. 751
Author(s):  
Kathleen O'Neill ◽  
Stacy Pirro
Keyword(s):  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Related Species ◽  
Complete Genome ◽  
De Novo ◽  
Stevia Rebaudiana ◽  
Whole Genome Sequence ◽  
Whole Genome ◽  
Link Type ◽  
Sequence Read Archive

The Sweetleaf (Stevia rebaudiana: Asteraceae) is widely grown for use as a sweetener.  We present the whole genome sequence and annotation of this species.  A total of 146,838,888 paired-end reads consisting of 22.2G bases were obtained by sequencing one leaf from a commercially grown seedling.  The reads were assembled by a de-novo method followed by alignment to related species.   Annotation was performed via GenMark-ES. The raw and assembled data is publicly available via GenBank: Sequence Read Archive (SRR6792730) and Assembly (GCA_009936405).

scholarly journals Whole-genome sequence and methylome profiling of the almond (Prunus dulcis [Mill.] D.A.Webb) cultivar Nonpareil

2021 ◽  
Author(s):  
Katherine M. D'Amico-Willman ◽  
Wilberforce Z. Ouma ◽  
Tea Meulia ◽  
Gina M. Sideli ◽  
Thomas M. Gradziel ◽  
...  
Keyword(s):  
Genome Sequence ◽  
Cytosine Methylation ◽  
Gene Prediction ◽  
Prunus Dulcis ◽  
The United States ◽  
Whole Genome Sequence ◽  
Whole Genome ◽  
Sequencing Data ◽  
Oxford Nanopore ◽  
Epigenetic Signatures

Almond (Prunus dulcis [Mill.] D.A. Webb) is an economically important, specialty nut crop grown almost exclusively in the United States. Breeding and improvement efforts worldwide have led to the development of key, productive cultivars, including Nonpareil, which is the most widely grown almond cultivar. Thus far, genomic resources for this species have been limited, and a whole-genome assembly for Nonpareil is not currently available despite its economic importance and use in almond breeding worldwide. We generated a 615.89X coverage genome sequence using Illumina, PacBio, and optical mapping technologies. Gene prediction revealed 27,487 genes using MinION Oxford nanopore and Illumina RNA sequencing, and genome annotation found that 68% of predicted models are associated with at least one biological function. Further, epigenetic signatures of almond, namely DNA cytosine methylation, have been implicated in a variety of phenotypes including self-compatibility, bud dormancy, and development of non-infectious bud failure. In addition to the genome sequence and annotation, this report also provides the complete methylome of several key almond tissues, including leaf, flower, endocarp, mesocarp, fruit skin, and seed coat. Comparisons between methylation profiles in these tissues revealed differences in genome-wide weighted percent methylation and chromosome-level methylation enrichment. The raw sequencing data are available on NCBI Sequence Read Archive, and the complete genome sequence and annotation files are available on NCBI Genbank. All data can be used without restriction.

scholarly journals Whole genome sequence and gene annotation resource for Didymella bellidis, associated with tea leaf spot

Plant Disease ◽  
2020 ◽  
Author(s):  
Xue Wang ◽  
Xian Wu ◽  
Shilong Jiang ◽  
Qiaoxiu Yin ◽  
Dongxue Li ◽  
...  
Keyword(s):  
Genome Sequence ◽  
Leaf Spot ◽  
Sequence Data ◽  
Gene Annotation ◽  
Gene Prediction ◽  
Guizhou Province ◽  
Whole Genome Sequence ◽  
Phytopathogenic Fungus ◽  
Future Research ◽  
Whole Genome

Didymella bellidis is a phytopathogenic fungus that causes leaf spot on tea plants (Camellia sinensis), which negatively affects the productivity and quality of tea leaves in Guizhou Province, China. D. bellidis isolate GZYQYQX2B was sequenced using Pacific Biosciences and Illumina technologies, and assembled into a whole genome of 35.5 Mbp. Transcripts of D. bellidis isolate GZYQYQX2B were predicted from the assembled genome and were further validated by RNA sequence data. In total, 10,731 genes were predicted by integrating three approaches, namely ab initio and homology-based gene prediction, as well as transcriptomics data. The whole-genome sequence of D. bellidis will provide a resource for future research on trait-specific genes of the pathogen and host-pathogen interactions.

scholarly journals Whole-Genome Sequence of Pseudomonas fluorescens EK007-RG4, a Promising Biocontrol Agent against a Broad Range of Bacteria, Including the Fire Blight Bacterium Erwinia amylovora

2017 ◽  
Vol 5 (13) ◽  
Author(s):  
Roghayeh Habibi ◽  
Saeed Tarighi ◽  
Javad Behravan ◽  
Parissa Taheri ◽  
Annelise Helene Kjøller ◽  
...  
Keyword(s):  
Pseudomonas Fluorescens ◽  
Genome Sequence ◽  
Pathogenic Bacteria ◽  
Fire Blight ◽  
Erwinia Amylovora ◽  
Whole Genome Sequence ◽  
Whole Genome ◽  
Content Type ◽  
Pear Tree ◽  
Blight Disease

ABSTRACT Here, we report the first draft whole-genome sequence of Pseudomonas fluorescens strain EK007-RG4, which was isolated from the phylloplane of a pear tree. P. fluorescens EK007-RG4 displays strong antagonism against Erwinia amylovora, the causal agent for fire blight disease, in addition to several other pathogenic and non-pathogenic bacteria.

scholarly journals Whole-Genome Sequence of the Orchid Anthracnose Pathogen Colletotrichum orchidophilum

2018 ◽  
Vol 31 (10) ◽  
pp. 979-981 ◽  
Author(s):  
Riccardo Baroncelli ◽  
Serenella A. Sukno ◽  
Sabrina Sarrocco ◽  
Giovanni Cafà ◽  
Gaetan Le Floch ◽  
...  
Keyword(s):  
Genome Sequence ◽  
Related Species ◽  
Species Complex ◽  
Pathogenic Fungus ◽  
Whole Genome Sequence ◽  
Future Research ◽  
Whole Genome ◽  
Wide Range ◽  
The Family ◽  
Evolutionary Studies

Colletotrichum orchidophilum is a plant-pathogenic fungus infecting a wide range of plant species belonging to the family Orchidaceae. In addition to its economic impact, C. orchidophilum has been used in recent years in evolutionary studies because it represents the closest related species to the C. acutatum species complex. Here, we present the first-draft whole-genome sequence of C. orchidophilum IMI 309357, providing a resource for future research on anthracnose of Orchidaceae and other hosts.

scholarly journals Complete Genome Sequence of an Enterovirus A71 Strain Isolated in 2006 from a Patient in Shenzhen, Southern China, with a Lethal Case of Enterovirus Infection

2018 ◽  
Vol 6 (10) ◽  
Author(s):  
Xiang-Jie Yao ◽  
Long Chen ◽  
Hong Yang ◽  
Jun Meng ◽  
Hai-Long Zhang ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Southern China ◽  
Fatal Case ◽  
Whole Genome Sequence ◽  
Whole Genome ◽  
Vp1 Gene ◽  
Enterovirus Infection ◽  
Enterovirus A71

ABSTRACTThe whole-genome sequence of an enterovirus A71 strain (EV71/SHENZHEN001/2006) isolated in 2006 from a patient with a fatal case of enterovirus infection was determined. Phylogenetic analysis based on the complete VP1 gene classified this strain as subgenotype C4a.

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