Frontiers in Plant Science | Functional and Applied Plant Genomics

Original Research

Published on 14 Oct 2025

Prediction of harvest-related traits in barley using high-throughput phenotyping data and machine learning

in Functional and Applied Plant Genomics

Hans Tietze
Lamis Abdelhakim
Barbora Pleskačová
Ayelet Kurtz-Sohn
Eyal Fridman
Zoran Nikoloski
Klára Panzarová

Frontiers in Plant Science

doi 10.3389/fpls.2025.1686506

2,758 views
3 citations

Original Research

Published on 14 Oct 2025

Yield and yield component trait analysis with DArT genotyping for GWAS in soybean grown in drought conditions of Kazakhstan

in Functional and Applied Plant Genomics

Aigul Amangeldiyeva
Raushan Yerzhebayeva
Shynar Mazkirat
Svetlana Didorenko
Sholpan Bastaubayeva
Bekzhan Maikotov
Rinat Kassenov
Assel Jenisbayeva
Yuri Shavrukov

Frontiers in Plant Science

doi 10.3389/fpls.2025.1674201

1,765 views

Original Research

Published on 14 Oct 2025

Comparative analysis of chloroplast genomes in Carica species reveals evolutionary relationships of papaya and the development of efficient molecular markers

in Functional and Applied Plant Genomics

Yajin Chen
Xiaoxi Du
Lei Pan
Qiyuan Huang
Zhigang Hao

Frontiers in Plant Science

doi 10.3389/fpls.2025.1686914

2,427 views
2 citations

Original Research

Published on 13 Oct 2025

Re-calibration of flow cytometry standards for plant genome size estimation

in Functional and Applied Plant Genomics

Abhishek Soni
Robert J. Henry

Frontiers in Plant Science

doi 10.3389/fpls.2025.1548766

2,547 views

Original Research

Published on 09 Oct 2025

Fine mapping of the major-effect QTL qPHS4.1 revealed a CsDOG1 gene controlling pre-harvest sprouting in cucumber (Cucumis sativus L.)

in Functional and Applied Plant Genomics

Mingming Cao
Qiang Deng
Huizhe Wang
Changyue Liu
Haiyan Zhao
Ruihuan Yang

Frontiers in Plant Science

doi 10.3389/fpls.2025.1701268

2,068 views
1 citation

Original Research

Published on 08 Oct 2025

Genome-wide identification of GH17 family genes and their expression patterns associated with bud dormancy-regrowth regulation in Prunus persica

in Functional and Applied Plant Genomics

Xuehui Zhao
Haifeng Xie
Yifei Han
Jiaqi Zhang
Yihua Qi
Zejie Zhang
Maoxiang Sun
Meiying Liu
Fen Wang
Qingjie Wang

Frontiers in Plant Science

doi 10.3389/fpls.2025.1693135

1,847 views

Review

Published on 08 Oct 2025

Research progress on the synergistic regulation of MYB transcription factor-mediated developmental plasticity and stress responses in rice

in Functional and Applied Plant Genomics

Wenyan Peng
Yi Zhang
Hongjun Xie
Yinghong Yu
Mingdong Zhu

Frontiers in Plant Science

doi 10.3389/fpls.2025.1668800

2,284 views
2 citations

Technology and Code

Published on 07 Oct 2025

Optimizing fitness: plastic flowering time in variable environments

in Functional and Applied Plant Genomics

Wei Dong
Yalin Zhang
Yue Xing
Kexin Chang
Nianwei Qiu
Yuguang Song

Frontiers in Plant Science

doi 10.3389/fpls.2025.1690015

1,443 views

Original Research

Published on 02 Oct 2025

Analysis of the mitochondrial genome of the Camellia sinensis cv. ‘Zhuyeqi’: multichromosomal structure, RNA editing sites, and evolutionary characterization

in Functional and Applied Plant Genomics

Zhiyin Chen
Wei Zhou
Zixu Wang
Ziyi Chen
Xinyuan You
Yihui Gong

Frontiers in Plant Science

doi 10.3389/fpls.2025.1644130

2,524 views
1 citation

Opinion

Published on 01 Oct 2025

Decoding the mystery: AI-assisted bioinformatics and functional genomics technologies in medicinal plants

in Functional and Applied Plant Genomics

Cheng Song
Irfan Ali Sabir
Wanli Zhao
Yunpeng Cao

Frontiers in Plant Science

doi 10.3389/fpls.2025.1678483

4,804 views

Original Research

Published on 29 Sep 2025

Genome-wide association study and genome prediction of tallness trait in spinach phenotyping

in Functional and Applied Plant Genomics

Ibtisam Alatawi
Haizheng Xiong
Hanan Alkabkabi
Kenani Chiwina
Beiquan Mou
Qun Luo
Yuejun Qu
Renjie Du
Awais Riaz
Derrick J. Harrison

Frontiers in Plant Science

doi 10.3389/fpls.2025.1654904

3,064 views

Original Research

Published on 26 Sep 2025

Identification and evolutionary analysis of NAC transcription factors in Eriobotrya japonica: implications for sugar-acid regulatory networks during fruit development

in Functional and Applied Plant Genomics

Huiling Zhang
Meng Yang
Chengyang Ye
Minghui Chen
Hailing Gu
Xiurun Fan
Chencong Yang
Junwei Chen
Kai Xu
Boping Wu

Frontiers in Plant Science

doi 10.3389/fpls.2025.1671017

2,469 views

Original Research

Published on 25 Sep 2025

Comparative analysis of the NLR gene family in the genomes of garden asparagus (Asparagus officinalis) and its wild relatives

in Functional and Applied Plant Genomics

Li-Ping Sun
Wen-Zhuo Zhai
Rui-Yan Song
Hao-Han Ning
Shu-Fen Li
Wu-Jun Gao

Frontiers in Plant Science

doi 10.3389/fpls.2025.1681919

3,213 views
1 citation

Data Report

Published on 25 Sep 2025

Chromosome-level assembly of the Glechoma longituba genome

in Functional and Applied Plant Genomics

Yubang Gao
ChenQi Zhao
Dongdong Yang

Frontiers in Plant Science

doi 10.3389/fpls.2025.1597825

1,957 views

Original Research

Published on 19 Sep 2025

Comparative assessment of species identification methods for European Salicornia sources: a multifaceted approach employing morphology, nuclear DNA content, phylogenetic markers, RNA topology, and SSR fingerprinting

in Functional and Applied Plant Genomics

Andre Fussy
Samuele Austoni
Traud Winkelmann
Jutta Papenbrock

Frontiers in Plant Science

doi 10.3389/fpls.2025.1666009

2,205 views
1 citation

Original Research

Published on 19 Sep 2025

Genome-wide identification and expression analysis of CCoAOMT genes in Capsicum annuum L. under drought stress

in Functional and Applied Plant Genomics

Di Wu
Chen Lu
Liwei Bai
Xi Yan
Wei Lai
Xiaoming Zhang
Lei He
Jianwen He

Frontiers in Plant Science

doi 10.3389/fpls.2025.1654390

2,104 views

Original Research

Published on 18 Sep 2025

Transcriptome analysis of rice resistant and susceptible near-isogenic lines in response to infection by Xanthomonas oryzae pv. oryzicola

in Functional and Applied Plant Genomics

Hui Zhang
Min Tang
Yao Wan
Ziqiu Deng
Xuemei Qin
Jieyi Huang
Xuan Wei
Rongbai Li
Fang Liu

Frontiers in Plant Science

doi 10.3389/fpls.2025.1610315

2,457 views

Data Report

Published on 12 Sep 2025

Sequencing and characterizing the complete chloroplast genome of Ardisia silvestris Pit., a potential medicinal plant in Asia

in Functional and Applied Plant Genomics

Nhat Nam Nguyen
Hoang Dang Khoa Do

Frontiers in Plant Science

doi 10.3389/fpls.2025.1627578

2,755 views

Original Research

Published on 09 Sep 2025

Genome-wide identification, expression and functional analysis of glutathione s-transferase family members in Quercus dentata under heavy metal stresses

in Functional and Applied Plant Genomics

Jingjing Sha
Xiangyue Wu
Ao Shen
Xin Pang
Wenbo Wang
Pingsheng Leng
Zenghui Hu
Yazhou Zhao
Xiangfeng He

Frontiers in Plant Science

doi 10.3389/fpls.2025.1641553

2,147 views

Original Research

Published on 08 Sep 2025

Genome-wide identification of the OVATE gene family of proteins in soybean and expression profiling under salt stress

in Functional and Applied Plant Genomics

Fan Zhan
Yi Wang
Lili Zhang
Yuehua Yu
Zhiyong Ni

Frontiers in Plant Science

doi 10.3389/fpls.2025.1682513

2,679 views
1 citation

Original Research

Published on 05 Sep 2025

MsDAD1 acts as a heat-induced “senescence brake” in alfalfa

in Functional and Applied Plant Genomics

Yuguang Song
Xinying Guo
Linyao Wang
Yingying Zheng
Ting Li
Wei Dong

Frontiers in Plant Science

doi 10.3389/fpls.2025.1664465

1,920 views
1 citation

Original Research

Published on 04 Sep 2025

Uncovering dormancy stage predictors in sweet cherry through DNA methylation and machine learning integration

in Functional and Applied Plant Genomics

Gabriela M. Saavedra
Poliana Povea
Claudio Urra
José Gaete-Loyola
Carlos Maldonado
Andrea Miyasaka Almeida

Frontiers in Plant Science

doi 10.3389/fpls.2025.1659345

2,441 views

Data Report

Published on 01 Sep 2025

Complete plastome of Elaeodendron glaucum (Rottb.) Pers.: genomic resources for Celastraceae systematics

in Functional and Applied Plant Genomics

Dipta Sumeru Rinandio
Iin Pertiwi A. Husaini
Mahat Magandhi
Irfan Martiansyah
Tri Yuni Indah Wulansari
Julisasi Tri Hadiah
Deden Girmansyah
Nanda Utami
Rugayah
Arifin Surya Dwipa Irsyam

Frontiers in Plant Science

doi 10.3389/fpls.2025.1649473

1,773 views

Original Research

Published on 21 Aug 2025

Characterization and expression analysis of transcription factors in Spartina alterniflora unveil their critical roles in salt stress resistance

in Functional and Applied Plant Genomics

Yuanyuan Jiang
Shoukun Chen
Shuqiang Gao
Jiahui Geng
Qin Shu
Shang Gao
Huihui Li

Frontiers in Plant Science

doi 10.3389/fpls.2025.1592211

2,399 views

653 articles

articles

Prediction of harvest-related traits in barley using high-throughput phenotyping data and machine learning

Yield and yield component trait analysis with DArT genotyping for GWAS in soybean grown in drought conditions of Kazakhstan

Comparative analysis of chloroplast genomes in Carica species reveals evolutionary relationships of papaya and the development of efficient molecular markers

Re-calibration of flow cytometry standards for plant genome size estimation

Fine mapping of the major-effect QTL qPHS4.1 revealed a CsDOG1 gene controlling pre-harvest sprouting in cucumber (Cucumis sativus L.)

Genome-wide identification of GH17 family genes and their expression patterns associated with bud dormancy-regrowth regulation in Prunus persica

Research progress on the synergistic regulation of MYB transcription factor-mediated developmental plasticity and stress responses in rice

Optimizing fitness: plastic flowering time in variable environments

Analysis of the mitochondrial genome of the Camellia sinensis cv. ‘Zhuyeqi’: multichromosomal structure, RNA editing sites, and evolutionary characterization

Decoding the mystery: AI-assisted bioinformatics and functional genomics technologies in medicinal plants

Genome-wide association study and genome prediction of tallness trait in spinach phenotyping

Identification and evolutionary analysis of NAC transcription factors in Eriobotrya japonica: implications for sugar-acid regulatory networks during fruit development

Comparative analysis of the NLR gene family in the genomes of garden asparagus (Asparagus officinalis) and its wild relatives

Chromosome-level assembly of the Glechoma longituba genome

Comparative assessment of species identification methods for European Salicornia sources: a multifaceted approach employing morphology, nuclear DNA content, phylogenetic markers, RNA topology, and SSR fingerprinting

Genome-wide identification and expression analysis of CCoAOMT genes in Capsicum annuum L. under drought stress

Transcriptome analysis of rice resistant and susceptible near-isogenic lines in response to infection by Xanthomonas oryzae pv. oryzicola

Sequencing and characterizing the complete chloroplast genome of Ardisia silvestris Pit., a potential medicinal plant in Asia

Genome-wide identification, expression and functional analysis of glutathione s-transferase family members in Quercus dentata under heavy metal stresses

Genome-wide identification of the OVATE gene family of proteins in soybean and expression profiling under salt stress

MsDAD1 acts as a heat-induced “senescence brake” in alfalfa

Uncovering dormancy stage predictors in sweet cherry through DNA methylation and machine learning integration

Complete plastome of Elaeodendron glaucum (Rottb.) Pers.: genomic resources for Celastraceae systematics

Characterization and expression analysis of transcription factors in Spartina alterniflora unveil their critical roles in salt stress resistance