Evidence map›Paper›PMID 38811578›Full record

ArticleScientific data2024

The chromosome-level genome assembly of the dwarfing apple interstock Malus hybrid 'SH6'.

Jinrong Li, Huacheng Cai, Haixu Peng, Yulin Deng, Shijie Zhou, Ji Tian, Jie Zhang, Yujing Hu, Xiaoxiao Qin, Yuncong Yao and 2 more

Abstract readDataset
PubMed Full text at PMC Publisher
In one paragraph

Article in Scientific data, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.

0numbers the graph read from it
0cells of the map it votes in
5citing 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

5 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

12 authors.

Jinrong Li *Beijing Key Laboratory for Agriculture Application and New Technique, College of Plant Science and Technology, Beijing University of Agriculture, Beijing, 102206, China.
Huacheng Cai *Pomology Institute, Shanxi Agricultural University, Taigu, 030801, China.
Haixu PengBeijing Key Laboratory for Agriculture Application and New Technique, College of Plant Science and Technology, Beijing University of Agriculture, Beijing, 102206, China.
Yulin DengBeijing Key Laboratory for Agriculture Application and New Technique, College of Plant Science and Technology, Beijing University of Agriculture, Beijing, 102206, China.
Shijie ZhouBeijing Key Laboratory for Agriculture Application and New Technique, College of Plant Science and Technology, Beijing University of Agriculture, Beijing, 102206, China.
Ji TianBeijing Key Laboratory for Agriculture Application and New Technique, College of Plant Science and Technology, Beijing University of Agriculture, Beijing, 102206, China.
Jie ZhangBeijing Key Laboratory for Agriculture Application and New Technique, College of Plant Science and Technology, Beijing University of Agriculture, Beijing, 102206, China.
Yujing HuBeijing Key Laboratory for Agriculture Application and New Technique, College of Plant Science and Technology, Beijing University of Agriculture, Beijing, 102206, China.
Xiaoxiao QinBeijing Key Laboratory for Agriculture Application and New Technique, College of Plant Science and Technology, Beijing University of Agriculture, Beijing, 102206, China.
Yuncong YaoBeijing Key Laboratory for Agriculture Application and New Technique, College of Plant Science and Technology, Beijing University of Agriculture, Beijing, 102206, China.ORCID 0000-0001-5512-1668
Yi ZhengBeijing Key Laboratory for Agriculture Application and New Technique, College of Plant Science and Technology, Beijing University of Agriculture, Beijing, 102206, China. yz@moilab.net.ORCID 0000-0002-8042-7770
Sen WangBeijing Key Laboratory for Agriculture Application and New Technique, College of Plant Science and Technology, Beijing University of Agriculture, Beijing, 102206, China. wangsen10@mails.ucas.ac.cn.

Funding

Beijing Municipal Commission of Education (Beijing Municipal Education Commission) KM202310020010
6 · The paper itself

Abstract

Malus hybrid 'SH6' (M. honanensis × M. domestica)is a commonly used apple interstock in China, known for its excellent dwarfing characteristics and cold tolerance. In this study, a combined strategy utilizing PacBio HiFi, Hi-C and parental resequencing data were employed to assemble two haploid genomes for 'SH6'. After chromosome anchoring, the final hapH genome size was 596.63 Mb, with a contig N50 of 34.38 Mb. The hapR genome was 649.37 Mb, with a contig N50 of 36.84 Mb. Further analysis predicted that repeated sequences made up 59.69% and 62.52% of the entire genome, respectively. Gene annotations revealed 45,435 genes for hapH and 48,261 genes for hapR. Combined with genomic synteny we suggest that the hapR genome originates from its maternal parent M. domestica cv. Ralls Janet, while the hapH genome comes from its paternal parent, M. honanensis. The assembled genome significantly contributes to the discovery of genes associated with apple dwarfing and the molecular mechanisms governing them.

Indexed as

Genome, PlantMalusChromosomes, Plant

Identifiers

PMID38811578
PMCPMC11136958

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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.