Evidence map›Paper›PMID 36044245›Full record

ArticleThe Journal of heredity2022

A chromosome-level reference genome for the giant pink sea star, Pisaster brevispinus, a species severely impacted by wasting.

Melissa B DeBiasse, Lauren M Schiebelhut, Merly Escalona, Eric Beraut, Colin Fairbairn, Mohan P A Marimuthu, Oanh Nguyen, Ruta Sahasrabudhe, Michael N Dawson

Abstract read
In one paragraph

Article in The Journal of heredity, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.

0numbers the graph read from it
0cells of the map it votes in
6citing 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

6 citing papers in PubMed.

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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

9 authors.

Melissa B DeBiasseDepartment of Life and Environmental Sciences, University of California, Merced, CA, United States.ORCID 0000-0003-0404-7212
Lauren M SchiebelhutDepartment of Life and Environmental Sciences, University of California, Merced, CA, United States.ORCID 0000-0002-5417-5426
Merly EscalonaDepartment of Biomolecular Engineering, University of California Santa Cruz, Santa Cruz, CA, United States.ORCID 0000-0003-0213-4777
Eric BerautEcology & Evolutionary Biology Department, University of California Santa Cruz, Santa Cruz, CA, United States.ORCID 0000-0002-4443-6282
Colin FairbairnEcology & Evolutionary Biology Department, University of California Santa Cruz, Santa Cruz, CA, United States.
Mohan P A MarimuthuDNA Technologies and Expression Analysis Core Laboratory, Genome Center, University of California Davis, Davis, CA, United States.ORCID 0000-0001-6121-3286
Oanh NguyenDNA Technologies and Expression Analysis Core Laboratory, Genome Center, University of California Davis, Davis, CA, United States.ORCID 0000-0003-1492-2084
Ruta SahasrabudheDNA Technologies and Expression Analysis Core Laboratory, Genome Center, University of California Davis, Davis, CA, United States.
Michael N DawsonDepartment of Life and Environmental Sciences, University of California, Merced, CA, United States.ORCID 0000-0001-7927-8395

Funding

Pacific Biosciences PacBio RS Single Molecule Real Time SequencerS10OD018174 · OD · UNIVERSITY OF CALIFORNIA BERKELEY · PI ROKHSAR, DANIEL SOLEYMAN · 2014 to 2014
$600k
Acquisition of Covaris E220 and Sciclone G3 systems for high throughput sequencinS10OD010786 · OD · UNIVERSITY OF CALIFORNIA AT DAVIS · PI COMAI, LUCA · 2012 to 2012
$311k
NIH HHS 1S10OD010786-01NIH HHS S10 OD010786NIH HHS S10 OD018174
6 · The paper itself

Abstract

Efforts to protect the ecologically and economically significant California Current Ecosystem from global change will greatly benefit from data about patterns of local adaptation and population connectivity. To facilitate that work, we present a reference-quality genome for the giant pink sea star, Pisaster brevispinus, a species of ecological importance along the Pacific west coast of North America that has been heavily impacted by environmental change and disease. We used Pacific Biosciences HiFi long sequencing reads and Dovetail Omni-C proximity reads to generate a highly contiguous genome assembly of 550 Mb in length. The assembly contains 127 scaffolds with a contig N50 of 4.6 Mb and a scaffold N50 of 21.4 Mb; the BUSCO completeness score is 98.70%. The P. brevispinus genome assembly is comparable to the genome of the congener species P. ochraceus in size and completeness. Both Pisaster assemblies are consistent with previously published karyotyping results showing sea star genomes are organized into 22 autosomes. The reference genome for P. brevispinus is an important first step toward the goal of producing a comprehensive, population genomics view of ecological and evolutionary processes along the California coast. This resource will help scientists, managers, and policy makers in their task of understanding and protecting critical coastal regions from the impacts of global change.

Indexed as

EcosystemStarfishAnimalsChromosomesGenomeNorth AmericaAsteroideaCalifornia Conservation Genomics Project (CCGP)California Current Ecosystem (CCE)Echinodermataglobal changemarine invertebrate

Identifiers

PMID36044245
PMCPMC9709977

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC
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.