Evidence map›Paper›PMID 35567593›Full record

ArticleThe Journal of heredity2022

A Draft Reference Genome Assembly of the Critically Endangered Black Abalone, Haliotis cracherodii.

Chloé Orland, Merly Escalona, Ruta Sahasrabudhe, Mohan P A Marimuthu, Oanh Nguyen, Eric Beraut, Blythe Marshman, James Moore, Peter Raimondi, Beth Shapiro

Open access · hybridAbstract 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 7 papers.

0numbers the graph read from it
0cells of the map it votes in
7citing papers in PubMed
1.4field-weighted citation impact, top 21% 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

7 citing papers in PubMed, 13 citations in OpenAlex.

  1. Article
  2. Ancient DNA from shells reveals delayed genomic erosion and rapid immune adaptation in the critically endangered black abalone.Proceedings of the National Academy of Sciences of the United States of America · 2026
    Article
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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

10 authors at 3 institutions in 1 country.

Chloé OrlandEcology and Evolutionary Biology Department, University of California Santa Cruz, Santa Cruz, CA, USA.ORCID 0000-0002-7174-677X
Merly EscalonaDepartment of Biomolecular Engineering, University of California Santa Cruz, Santa Cruz, CA, USA.
Ruta SahasrabudheUC Davis Genome Center, DNA Technologies and Expression Analysis Cores, University of California, Davis, Davis, CA, USA.
Mohan P A MarimuthuUC Davis Genome Center, DNA Technologies and Expression Analysis Cores, University of California, Davis, Davis, CA, USA.
Oanh NguyenUC Davis Genome Center, DNA Technologies and Expression Analysis Cores, University of California, Davis, Davis, CA, USA.
Eric BerautEcology and Evolutionary Biology Department, University of California Santa Cruz, Santa Cruz, CA, USA.
Blythe MarshmanMarine Laboratory, University of California Davis, Davis, CA, USA.
James MooreMarine Laboratory, University of California Davis, Davis, CA, USA.
Peter RaimondiEcology and Evolutionary Biology Department, University of California Santa Cruz, Santa Cruz, CA, USA.
Beth ShapiroEcology and Evolutionary Biology Department, University of California Santa Cruz, Santa Cruz, CA, USA.ORCID 0000-0002-2733-7776
University of California, Davis · USUniversity of California, Santa Cruz · USHoward Hughes Medical Institute · US

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

The once abundant black abalone, Haliotis cracherodii, is a large, long-lived grazing marine mollusk that inhabits the rocky intertidal along the coast of California. The species has experienced dramatic declines since the mid-1980s largely due to the fatal bacterial disease called withering syndrome, leading to the collapse of an economically important fishery and to its inclusion into the IUCN listing as a critically endangered species. In some places impacted by the disease, populations of black abalone have declined by more than 90%, prompting population crashes associated with very little recruitment of new individuals and changes to intertidal communities. Habitats that were dominated by crustose coralline algae and bare rock have become dominated instead by fleshy algae and sessile invertebrates. Here, we present the first high-quality black abalone reference genome, assembled with PacBio HiFi long-reads and assembled with Dovetail Omni-C data to generate a scaffold-level assembly. The black abalone reference genome will be an essential resource in understanding the evolutionary history of this species as well as for exploring its current levels of genetic diversity and establishing future management and restoration plans.

Indexed as

GastropodaAnimalsEcosystemEndangered SpeciesFisheriesHumansblack abalonegenetic diversitylong-read assemblyscaffolded assemblywhole genome

Identifiers

PMID35567593
PMCPMC9709981
OpenAlexW4280542915

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.