Evidence map›Paper›PMID 39504486›Full record

ArticleThe Journal of heredity2025

A genome assembly for the California endemic liverwort Calasterella californica.

Ixchel S González-Ramírez, Merly Escalona, Courtney Miller, Noravit Chumchim, Mohan P A Marimuthu, Oanh Nguyen, Michael J Song, Brent D Mishler

Abstract read
In one paragraph

Article in The Journal of heredity, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing 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

2 citing papers in PubMed.

  1. Article
  2. 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

8 authors.

Ixchel S González-RamírezDepartment of Integrative Biology, University of California Berkeley, Berkeley, CA, United States.ORCID 0000-0003-3667-5360
Merly EscalonaDepartment of Biomolecular Engineering, University of California Santa Cruz, Santa Cruz, CA, United States.ORCID 0000-0003-0213-4777
Courtney MillerDepartment of Ecology and Evolutionary Biology, University of California Los Angeles, Los Angeles, CA, United States.ORCID 0000-0002-4347-6629
Noravit ChumchimDNA Technologies and Expression Analysis Core Laboratory, Genome Center, University of California Davis, Davis, CA, United States.ORCID 0000-0003-1139-9427
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
Michael J SongDepartment of Biology, Skyline College, San Bruno, CA, United States.ORCID 0000-0001-5961-753X
Brent D MishlerDepartment of Integrative Biology, University of California Berkeley, Berkeley, CA, United States.

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
California Conservation Genomics ProjectCONACyT 709967NIH HHS S10 OD010786NIH HHS S10 OD018174University of California RSI-19-690224
6 · The paper itself

Abstract

Calasterella californica belongs to a monotypic genus of liverworts endemic to the west coast of North America, primarily distributed in California. This dioicous species occurs in a variety of ecosystems from deserts to redwood forests; little is known about how this species is adapted to live in those seemingly contrasting environments. In this paper, we report on the assembly of the nuclear genome of C. californica. As part of the California Conservation Genomics Project (CCGP), we used Pacific Biosciences HiFi long-read sequencing data to produce a de novo assembly that consists of 772 contigs, with a total length of 517 Mbp and a BUSCO complete score of 95%. Calasterella californica is only the sixth species of liverworts-a group with more than 7,200 described species-to have a nuclear reference genome. The availability of this reference genome will facilitate the study of the unique features of C. californica and other liverworts, pave the road towards a comparative understanding of liverwort genomes, and add an important starting point for studies of the geographic variation of this species within the CCGP project.

Indexed as

Genome, PlantHepatophytaCaliforniaGenomicsPhylogenySequence Analysis, DNAAsterella californicaAytoniaceaeCalifornia Conservation Genomics ProjectCCGPliverworts

Identifiers

PMID39504486
PMCPMC12130436

What OpenQuestion holds

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Registered trials

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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.