Evidence map›Paper›PMID 38649816›Full record

ArticleBMC genomics2024

The size diversity of the Pteridaceae family chloroplast genome is caused by overlong intergenic spacers.

Xiaolin Gu, Lingling Li, Xiaona Zhong, Yingjuan Su, Ting Wang

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

Article in BMC genomics, 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
0.9field-weighted citation impact, top 27% 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

4 citing papers in PubMed, 4 citations in OpenAlex.

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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

5 authors at 2 institutions in 1 country.

Xiaolin GuCollege of Life Sciences, South China Agricultural University, 510642, Guangzhou, China.
Lingling LiCollege of Life Sciences, South China Agricultural University, 510642, Guangzhou, China.
Xiaona ZhongCollege of Life Sciences, South China Agricultural University, 510642, Guangzhou, China.
Yingjuan SuSchool of Life Sciences, Sun Yat-sen University, 510275, Guangzhou, China. suyj@mail.sysu.edu.cn.
Ting WangCollege of Life Sciences, South China Agricultural University, 510642, Guangzhou, China. tingwang@scau.edu.cn.
South China Agricultural University · CNSun Yat-sen University · CN

Funding

Basic and Applied Basic Research Foundation of Guangdong Province 2021A1515010911National Natural Science Foundation of China 31872670National Natural Science Foundation of China 32071781Project of Department of Science and Technology of Shenzhen City, Guangdong, China JCYJ20190813172001780Science and Technology Projects in Guangzhou 202206010107
6 · The paper itself

Abstract

backgroundWhile the size of chloroplast genomes (cpDNAs) is often influenced by the expansion and contraction of inverted repeat regions and the enrichment of repeats, it is the intergenic spacers (IGSs) that appear to play a pivotal role in determining the size of Pteridaceae cpDNAs. This provides an opportunity to delve into the evolution of chloroplast genomic structures of the Pteridaceae family. This study added five Pteridaceae species, comparing them with 36 published counterparts.

resultsPoor alignment in the non-coding regions of the Pteridaceae family was observed, and this was attributed to the widespread presence of overlong IGSs in Pteridaceae cpDNAs. These overlong IGSs were identified as a major factor influencing variations in cpDNA size. In comparison to non-expanded IGSs, overlong IGSs exhibited significantly higher GC content and were rich in repetitive sequences. Species divergence time estimations suggest that these overlong IGSs may have already existed during the early radiation of the Pteridaceae family.

conclusionsThis study reveals new insights into the genetic variation, evolutionary history, and dynamic changes in the cpDNA structure of the Pteridaceae family, providing a fundamental resource for further exploring its evolutionary research.

Indexed as

ChloroplastsDNA, ChloroplastGenome, ChloroplastPteridaceaeDNA Transposable ElementsEvolution, MolecularGenetic VariationMicrosatellite RepeatsPhylogenySpecies SpecificityTime FactorsDNA, ChloroplastDNA Transposable ElementsChloroplastDivergence timeEvolutionary genomicsPteridaceaeStructural comparison

Identifiers

PMID38649816
PMCPMC11036588
OpenAlexW4394998173

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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.