scholarly journals Introduction to Nematode Genome and Transcriptome Announcements in the Journal of Nematology

2017 ◽  
Vol 49 (2) ◽  
pp. 125-126
Author(s):  
DEE R. DENVER ◽  
ERIK J. RAGSDALE ◽  
W. KELLEY THOMAS ◽  
INGA A. ZASADA
Keyword(s):  
Nematode Genome

The plant parasite Pratylenchus coffeae carries a minimal nematode genome

Nematology ◽  
2015 ◽  
Vol 17 (6) ◽  
pp. 621-637 ◽  
Author(s):  
Mark Burke ◽  
Elizabeth H. Scholl ◽  
David McK. Bird ◽  
Jennifer E. Schaff ◽  
Steven D. Colman ◽  
...  
Keyword(s):  
Genome Sequence ◽  
Plant Interactions ◽  
Free Living ◽  
Root Knot Nematodes ◽  
Feeding Site ◽  
Tropical Regions ◽  
Pratylenchus Coffeae ◽  
Model Free ◽  
Lesion Nematode ◽  
Nematode Genome

Here we report the genome sequence of the lesion nematode, Pratylenchus coffeae, a significant pest of banana and other staple crops in tropical and sub-tropical regions worldwide. Initial analysis of the 19.67 Mb genome reveals 6712 protein encoding genes, the smallest number found in a metazoan, although sufficient to make a nematode. Significantly, no developmental or physiological pathways are obviously missing when compared to the model free-living nematode Caenorhabditis elegans, which possesses approximately 21 000 genes. The highly streamlined P. coffeae genome may reveal a remarkable functional plasticity in nematode genomes and may also indicate evolutionary routes to increased specialisation in other nematode genera. In addition, the P. coffeae genome may begin to reveal the core set of genes necessary to make a multicellular animal. Nematodes exhibit striking diversity in the niches they occupy, and the sequence of P. coffeae is a tool to begin to unravel the mechanisms that enable the extraordinary success of this phylum as both free-living and parasitic forms. Unlike the sedentary endoparasitic root-knot nematodes (Meloidogyne spp.), P. coffeae is a root-lesion nematode that does not establish a feeding site within the root. Because the P. coffeae nematode genome encodes fewer than half the number of genes found in the genomes of root-knot nematodes, comparative analysis to determine genes P. coffeae does not carry may help to define development of more sophisticated forms of nematode-plant interactions. The P. coffeae genome sequence may help to define timelines related to evolution of parasitism amongst nematodes. The genome of P. coffeae is a significant new tool to understand not only nematode evolution but animal biology in general.

Genomic Analysis of the Root-Knot Nematode Genome

2008 ◽  
Author(s):  
Charles H. Opperman ◽  
David M.C.K. Bird ◽  
Jennifer E. Schaff
Keyword(s):  
Genomic Analysis ◽  
Root Knot Nematode ◽  
Nematode Genome

scholarly journals Nematode Genome Announcement: A Draft Genome for Rice Root-Knot Nematode, Meloidogyne graminicola

2018 ◽  
Vol 50 (2) ◽  
pp. 111-116 ◽  
Author(s):  
Vishal Singh Somvanshi ◽  
Madhura Tathode ◽  
Rohit Nandan Shukla ◽  
Uma Rao
Keyword(s):  
Draft Genome ◽  
Rice Root ◽  
Root Knot Nematode ◽  
Meloidogyne Graminicola ◽  
Nematode Genome

scholarly journals Genetic and molecular analysis of a Caenorhabditis elegans beta-tubulin that conveys benzimidazole sensitivity.

1989 ◽  
Vol 109 (6) ◽  
pp. 2993-3003 ◽  
Author(s):  
M Driscoll ◽  
E Dean ◽  
E Reilly ◽  
E Bergholz ◽  
M Chalfie
Keyword(s):  
Caenorhabditis Elegans ◽  
Sequence Analysis ◽  
Molecular Cloning ◽  
Dna Sequence ◽  
Molecular Analysis ◽  
Nematode Caenorhabditis Elegans ◽  
Beta Tubulin ◽  
C Elegans ◽  
Resistant Mutants ◽  
Nematode Genome

Benzimidazole anti-microtubule drugs, such as benomyl, induce paralysis and slow the growth of the nematode Caenorhabditis elegans. We have identified 28 mutations in C. elegans that confer resistance to benzimidazoles. All resistant mutations map to a single locus, ben-1. Virtually all these mutations are genetically dominant. Molecular cloning and DNA sequence analysis established that ben-1 encodes a beta-tubulin. Some resistant mutants are completely deleted for the ben-1 gene. Since the deletion strains appear to be fully resistant to the drugs, the ben-1 product appears to be the only benzimidazole-sensitive beta-tubulin in C. elegans. Furthermore, since animals lacking ben-1 are viable and coordinated, the ben-1 beta-tubulin appears to be nonessential for growth and movement. The ben-1 function is likely to be redundant in the nematode genome.

scholarly journals Nematode repetitive DNA with ARS and segregation function in Saccharomyces cerevisiae.

1988 ◽  
Vol 8 (2) ◽  
pp. 875-883 ◽  
Author(s):  
K M Felsenstein ◽  
S W Emmons
Keyword(s):  
Saccharomyces Cerevisiae ◽  
Repetitive Dna ◽  
Dna Sequences ◽  
Plasmid Copy Number ◽  
Yeast Cells ◽  
Plasmid Copy ◽  
Shuttle Vectors ◽  
Consensus Sequences ◽  
C Elegans ◽  
Nematode Genome

Several members of a repetitive DNA family in the nematode Caenorhabditis elegans have been shown to express ARS and centromeric function in Saccharomyces cerevisiae. The repetitive family, denoted CeRep3, consists of dispersed repeated elements about 1 kilobase in length, present 50 to 100 times in the nematode genome. Three elements were sequenced and found to contain DNA sequences homologous to yeast ARS and CEN consensus sequences. Nematode DNA segments containing these repeats were tested for ARS and CEN (or SEG) function after ligation to shuttle vectors and introduction into yeast cells. Such nematode segments conferred ARS function to the plasmid, as judged by an increased frequency of transformation compared with control plasmids without ARS function. Some, but not all, also conferred to the plasmid increased mitotic stability, increased frequency of 2+:2- segregation in meiosis, and decreased plasmid copy number. These effects are similar to those of yeast centromeric DNA. In view of these results, we suggest that the CeRep3 repetitive family may have replication and centromeric functions in C. elegans.

scholarly journals A chromosomal assembly of the soybean cyst nematode genome

2021 ◽  
Author(s):  
Rick E Masonbrink ◽  
Tom R Maier ◽  
Matthew Hudson ◽  
Andrew Severin ◽  
Thomas Baum
Keyword(s):  
Soybean Cyst Nematode ◽  
Cyst Nematode ◽  
Nematode Genome

scholarly journals Nematode Genome Announcement: Draft genome of Meloidogyne chitwoodi, an economically important pest of potato in the Pacific Northwest

2021 ◽  
Author(s):  
Sapinder Bali ◽  
Shengwei Hu ◽  
Kelly Vining ◽  
Charles R Brown ◽  
Hassan Majtahedi ◽  
...  
Keyword(s):  
Pacific Northwest ◽  
Draft Genome ◽  
Single Copy ◽  
Economic Losses ◽  
Meloidogyne Chitwoodi ◽  
The Pacific ◽  
Important Pest ◽  
Genome Assemblies ◽  
The U.S ◽  
Nematode Genome

Meloidogyne chitwoodi is one of the most devastating pests of potato in the U.S. Pacific Northwest (PNW). Nematode-infected tubers develop external as well as internal defects, making the potatoes unmarketable, and resulting in economic losses. Draft genome assemblies of three M. chitwoodi genotypes, Mc1, Mc2 and Mc1Roza, were generated using Illumina and PacBio Sequel RS II sequencing. The final assemblies consist of 30, 39 and 38 polished contigs for Mc1, Mc2 and Mc1Roza, respectively, with average N50 of 2.37 Mb and average assembled genome size of ~47.41 Mb. An average of 10,508 genes were annotated for each genome. BUSCO analysis indicated that 69.80% of the BUSCOs were complete whereas 68.80%, 0.93% and 12.67% were single copy, duplicated and fragmented, respectively. These highly contiguous genomes will enrich resources to study potato-nematode interactions and enhance breeding efforts to develop nematode resistant potato varieties for PNW.

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