Evidence map›Paper›PMID 37488485›Full record

ArticleBMC genomics2023

Genetic diversity and genome-wide association study of 13 agronomic traits in 977 Beta vulgaris L. germplasms.

Dali Liu, Wenbo Tan, Hao Wang, Wangsheng Li, Jingjing Fu, Jiajia Li, Yuanhang Zhou, Ming Lin, Wang Xing

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in BMC genomics, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

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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

3 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

9 authors.

Dali LiuNational Beet Medium-term Gene Bank, Heilongjiang University, Harbin, 150080, P. R. China.
Wenbo TanNational Beet Medium-term Gene Bank, Heilongjiang University, Harbin, 150080, P. R. China.
Hao WangNational Beet Medium-term Gene Bank, Heilongjiang University, Harbin, 150080, P. R. China.
Wangsheng LiNational Beet Medium-term Gene Bank, Heilongjiang University, Harbin, 150080, P. R. China.
Jingjing FuNational Beet Medium-term Gene Bank, Heilongjiang University, Harbin, 150080, P. R. China.
Jiajia LiNational Beet Medium-term Gene Bank, Heilongjiang University, Harbin, 150080, P. R. China.
Yuanhang ZhouXinjiang Academy of Agricultural Sciences, Urumqi, 830091, P. R. China.
Ming LinXinjiang Academy of Agricultural Sciences, Urumqi, 830091, P. R. China.
Wang XingNational Beet Medium-term Gene Bank, Heilongjiang University, Harbin, 150080, P. R. China. xyjiayou_086@163.com.

Funding

the National Sugar Industry Technology System Project CARS-170102
6 · The paper itself

Abstract

backgroundSugar beet (Beta vulgaris L.) is an economically essential sugar crop worldwide. Its agronomic traits are highly diverse and phenotypically plastic, influencing taproot yield and quality. The National Beet Medium-term Gene Bank in China maintains more than 1700 beet germplasms with diverse countries of origin. However, it lacks detailed genetic background associated with morphological variability and diversity.

resultsHere, a comprehensive genome-wide association study (GWAS) of 13 agronomic traits was conducted in a panel of 977 sugar beet accessions. Almost all phenotypic traits exhibited wide genetic diversity and high coefficient of variation (CV). A total of 170,750 high-quality single-nucleotide polymorphisms (SNPs) were obtained using the genotyping-by-sequencing (GBS). Neighbour-joining phylogenetic analysis, principal component analysis, population structure and kinship showed no obvious relationships among these genotypes based on subgroups or regional sources. GWAS was carried out using a mixed linear model, and 159 significant associations were detected for these traits. Within the 25 kb linkage disequilibrium decay of the associated markers, NRT1/PTR FAMILY 6.3 (BVRB_5g097760); nudix hydrolase 15 (BVRB_8g182070) and TRANSPORT INHIBITOR RESPONSE 1 (BVRB_8g181550); transcription factor MYB77 (BVRB_2g023500); and ethylene-responsive transcription factor ERF014 (BVRB_1g000090) were predicted to be strongly associated with the taproot traits of root groove depth (RGD); root shape (RS); crown size (CS); and flesh colour (FC), respectively. For the aboveground traits, UDP-glycosyltransferase 79B6 (BVRB_9g223780) and NAC domain-containing protein 7 (BVRB_5g097990); F-box protein At1g10780 (BVRB_6g140760); phosphate transporter PHO1 (BVRB_3g048660); F-box protein CPR1 (BVRB_8g181140); and transcription factor MYB77 (BVRB_2g023500) and alcohol acyltransferase 9 (BVRB_2g023460) might be associated with the hypocotyl colour (HC); plant type (PT); petiole length (PL); cotyledon size (C); and fascicled leaf type (FLT) of sugar beet, respectively. AP-2 complex subunit mu (BVRB_5g106130), trihelix transcription factor ASIL2 (BVRB_2g041790) and late embryogenesis abundant protein 18 (BVRB_5g106150) might be involved in pollen quantity (PQ) variation. The candidate genes extensively participated in hormone response, nitrogen and phosphorus transportation, secondary metabolism, fertilization and embryo maturation.

conclusionsThe genetic basis of agronomical traits is complicated in heterozygous diploid sugar beet. The putative valuable genes found in this study will help further elucidate the molecular mechanism of each phenotypic trait for beet breeding.

Indexed as

Beta vulgarisAntioxidantsGenetic VariationGenome-Wide Association StudyPhylogenyPlant BreedingTranscription FactorsAntioxidantsTranscription FactorsCandidate genesDescriptive traitsGenome-wide association study (GWAS)Genotyping-by-sequencing (GBS)Sugar beet (Beta vulgaris L.)

Identifiers

PMID37488485
PMCPMC10364417

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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.