Evidence map›Paper›PMID 37370172›Full record

ArticleBMC research notes2023

A chromosome scale assembly of the tarnished plant bug, Lygus lineolaris (Palisot de Beauvois), genome.

O P Perera, Surya Saha, James Glover, Katherine A Parys, K Clint Allen, Snejana Grozeva, Ryan Kurtz, Gadi V P Reddy, J Spencer Johnston, Mark Daly and 1 more

Abstract read
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In one paragraph

Article in BMC research notes, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

0numbers the graph read from it
0cells of the map it votes in
0citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

0 citing papers in PubMed.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

11 authors.

O P PereraSouthern Insect Management Research Unit, USDA ARS, 141 Experiment Station Road, Stoneville, MS, 38776, USA. op.perera@usda.gov.
Surya SahaBoyce Thompson Institute, 533 Tower Rd, Ithaca, NY, 14853, USA.
James GloverSouthern Insect Management Research Unit, USDA ARS, 141 Experiment Station Road, Stoneville, MS, 38776, USA.
Katherine A ParysPollinator Health in Southern Crop Ecosystems Research Unit, USDA ARS, 141 Experiment Station Road, Stoneville, MS, 38776, USA.
K Clint AllenSouthern Insect Management Research Unit, USDA ARS, 141 Experiment Station Road, Stoneville, MS, 38776, USA.
Snejana GrozevaInstitute of Zoology, Bulgarian Academy of Sciences, 1 Tsar Osvoboditel, Sofia, 1000, Bulgaria.
Ryan Kurtz, Cotton, Incorporated, Cary, NC, 27513, USA.
Gadi V P ReddySouthern Insect Management Research Unit, USDA ARS, 141 Experiment Station Road, Stoneville, MS, 38776, USA.
J Spencer JohnstonDepartment of Entomology, Texas A&M University, College Station, TX, 77843, USA.
Mark DalyDovetail Genomics, LLC, 100 Enterprise Way, Suite A101, Scotts Valley, CA, 95066, USA.
Thomas SwaleDovetail Genomics, LLC, 100 Enterprise Way, Suite A101, Scotts Valley, CA, 95066, USA.

Funding

Cotton Incorporated 12-349
6 · The paper itself

Abstract

objectiveThe tarnished plant bug (TPB), Lygus lineolaris (Palisot de Beauvois) (Hemiptera: Miridae), is a pest damaging many cultivated crops in North America. Although partial transcriptome data are available for this pest, a genome assembly was not available for this species. This assembly of a high-quality chromosome-length genome of TPB is aimed to develop the genetic resources that can provide the foundation required for advancing research on this species.

resultsThe initial genome of TPB assembled with paired-end nucleotide sequences generated with Illumina technology was scaffolded with Illumina HiseqX reads generated from a proximity ligated (HiC) library to obtain a high-quality genome assembly. The final assembly contained 3963 scaffolds longer than 1 kbp to yield a genome of 599.96 Mbp. The N50 of the TPB genome assembly was 35.64 Mbp and 98.68% of the genome was assembled into 17 scaffolds larger than 1 Mbp. This megabase scaffold number is the same as the number of chromosomes observed in karyotyping of this insect. The TPB genome is known to have high repetitive DNA content, and the reduced assembled genome size compared to flowcytometric estimates of approximately 860 Mbp may be due to the collapsed assembly of highly similar regions.

Indexed as

HeteropteraAnimalsChromosomesGene LibraryGenome, PlantCotton PestGenome assemblyLygus lineolarisMiridaeTarnished plant bug

Identifiers

PMID37370172
PMCPMC10303854

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.