Evidence map›Paper›PMID 39048698›Full record

ArticleCommunications biology2024

Genome and tissue-specific transcriptomes of the large-polyp coral, Fimbriaphyllia (Euphyllia) ancora: a recipe for a coral polyp.

Shinya Shikina, Yuki Yoshioka, Yi-Ling Chiu, Taiga Uchida, Emma Chen, Yin-Chu Cheng, Tzu-Chieh Lin, Yu-Ling Chu, Miyuki Kanda, Mayumi Kawamitsu and 5 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Communications biology, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.

0numbers the graph read from it
0cells of the map it votes in
4citing 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

4 citing papers in PubMed.

  1. Article
  2. Article
  3. Nearly T2T, phased genome assemblies of corals reveal haplotype diversity and the evolutionary process of gene expansion.DNA research : an international journal for rapid publication of reports on genes and genomes · 2025
    Article
  4. 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

15 authors.

Shinya ShikinaInstitute of Marine Environment and Ecology, National Taiwan Ocean University, Keelung, Taiwan. shikina@mail.ntou.edu.tw.ORCID 0000-0002-2426-6677
Yuki YoshiokaMarine Genomics Unit, Okinawa Institute of Science and Technology Graduate University, Onna, Okinawa, 904-0495, Japan.ORCID 0000-0001-6348-4629
Yi-Ling ChiuInstitute of Marine Environment and Ecology, National Taiwan Ocean University, Keelung, Taiwan.
Taiga UchidaAtmosphere and Ocean Research Institute, The University of Tokyo, Chiba, Japan.ORCID 0000-0002-3776-7032
Emma ChenInstitute of Marine Environment and Ecology, National Taiwan Ocean University, Keelung, Taiwan.
Yin-Chu ChengInstitute of Marine Environment and Ecology, National Taiwan Ocean University, Keelung, Taiwan.
Tzu-Chieh LinInstitute of Marine Environment and Ecology, National Taiwan Ocean University, Keelung, Taiwan.
Yu-Ling ChuInstitute of Marine Environment and Ecology, National Taiwan Ocean University, Keelung, Taiwan.
Miyuki KandaDNA Sequencing Center Section, Okinawa Institute of Science and Technology Graduate University, Onna, Okinawa, 904-0495, Japan.
Mayumi KawamitsuDNA Sequencing Center Section, Okinawa Institute of Science and Technology Graduate University, Onna, Okinawa, 904-0495, Japan.
Manabu FujieDNA Sequencing Center Section, Okinawa Institute of Science and Technology Graduate University, Onna, Okinawa, 904-0495, Japan.
Takeshi TakeuchiMarine Genomics Unit, Okinawa Institute of Science and Technology Graduate University, Onna, Okinawa, 904-0495, Japan.
Yuna ZayasuMarine Genomics Unit, Okinawa Institute of Science and Technology Graduate University, Onna, Okinawa, 904-0495, Japan.
Noriyuki SatohMarine Genomics Unit, Okinawa Institute of Science and Technology Graduate University, Onna, Okinawa, 904-0495, Japan.ORCID 0000-0002-4480-3572
Chuya ShinzatoAtmosphere and Ocean Research Institute, The University of Tokyo, Chiba, Japan. c.shinzato@aori.u-tokyo.ac.jp.ORCID 0000-0001-7843-3381

Funding

MEXT | Japan Society for the Promotion of Science (JSPS) 20H03235, 20K21860, and 24K01847MEXT | Japan Society for the Promotion of Science (JSPS) 20J21301
6 · The paper itself

Abstract

Coral polyps are composed of four tissues; however, their characteristics are largely unexplored. Here we report biological characteristics of tentacles (Te), mesenterial filaments (Me), body wall (Bo), and mouth with pharynx (MP), using comparative genomic, morpho-histological, and transcriptomic analyses of the large-polyp coral, Fimbriaphyllia ancora. A draft F. ancora genome assembly of 434 Mbp was created. Morpho-histological and transcriptomic characterization of the four tissues showed that they have distinct differences in structure, primary cellular composition, and transcriptional profiles. Tissue-specific, highly expressed genes (HEGs) of Te are related to biological defense, predation, and coral-algal symbiosis. Me expresses multiple digestive enzymes, whereas Bo expresses innate immunity and biomineralization-related molecules. Many receptors for neuropeptides and neurotransmitters are expressed in MP. This dataset and new insights into tissue functions will facilitate a deeper understanding of symbiotic biology, immunology, biomineralization, digestive biology, and neurobiology in corals.

Indexed as

AnthozoaGenomeTranscriptomeAnimalsGene Expression ProfilingOrgan SpecificityPolypsSymbiosis

Identifiers

PMID39048698
PMCPMC11269664

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.