Evidence map›Paper›PMID 33148306›Full record

ArticleBMC research notes2020

Draft genome assembly of Passalora sequoiae a needle blight pathogen on Leyland cypress.

Warren E Copes, Jorge Ibarra Caballero, Ebrahiem Babiker, Jane E Stewart, Valerie A Orner, Alan S Windham, Renee S Arias

Open access · goldAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in BMC research notes, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing papers in PubMed
0.2field-weighted citation impact, top 49% of its field
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

1 citing paper in PubMed, 2 citations in OpenAlex.

  1. Article
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

7 authors at 4 institutions in 1 country.

Warren E CopesUSDA ARS Thad Cochran Southern Horticultural Laboratory, Poplarville, MS, 39470, USA. Warren.Copes@usda.gov.ORCID http://orcid.org/0000-0001-7360-7506
Jorge Ibarra CaballeroDept. of Agricultural Biology, Colorado State University, Fort Collins, CO, 80523, USA.
Ebrahiem BabikerUSDA ARS Thad Cochran Southern Horticultural Laboratory, Poplarville, MS, 39470, USA.
Jane E StewartDept. of Agricultural Biology, Colorado State University, Fort Collins, CO, 80523, USA.
Valerie A OrnerUSDA ARS National Peanut Research Laboratory, Dawson, GA, 39842, USA.
Alan S WindhamSoil, Plant and Pest Center, University of Tennessee, Nashville, TN, 37211, USA.
Renee S AriasUSDA ARS National Peanut Research Laboratory, Dawson, GA, 39842, USA.
Colorado State University · USNational Peanut Research Laboratory · USSouthern Research Station · USUniversity of Tennessee at Knoxville · US

Funding

Agricultural Research Service USDA-ARS NP305 CRIS Project 6404-21430-001-00D
6 · The paper itself

Abstract

objectivePassalora sequoiae (family Mycosphaerellaceae) causes a twig blight on Leyland cypress that requires numerous fungicide applications annually to minimize economic losses for ornamental plant nursery and Christmas tree producers. The objective was to generate a high-quality draft assembly of the genome of P. sequoiae as a resource for primer development to investigate genotype diversity. DATA DESCRIPTION: We report here the genome sequence of P. sequoiae 9LC2 that was isolated from Leyland cypress 'Leighton Green' in 2017 in southern Mississippi, USA. The draft genome was obtained using Pacific Biosciences (PacBio) SMRT and Illumina HiSeq 2500 sequencing. Illumina reads were mapped to PacBio assembled contigs to determine base call consistency. Based on a total of 44 contigs with 722 kilobase (kb) average length (range 9.4 kb to 3.4 Mb), the whole genome size was estimated at 31,768,716 bp. Mapping of Illumina reads to PacBio contigs resulted in a 1000 × coverage and were used to confirm accuracy of the consensus sequences.

Indexed as

CupressusAscomycotaHigh-Throughput Nucleotide SequencingMississippiCupressocyparis leylandiiGenome annotationIlluminaLeyland cypressNeedle blightPacBio

Identifiers

PMID33148306
PMCPMC7640444
OpenAlexW3094824394

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

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.