Genomics and Genetics

Genomics and Genetics

Plant Genomics

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1-10 of 10 ARTICLES
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https://doi.org/10.12688/f1000research.166538.1
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White paper: standards for handling and analyzing plant pan-genomes
[version 1; peer review: 2 approved with reservations]
Marc C. Heuermann, Pedro Barros, Sebastian Beier, Heidrun Gundlach, Jorge Alvarez-Jarreta, Keywan Hassani-Pak, Patrick König, Anne Fiebig, Tim Godec, Kristina Gruden, Nadja Nolte, Marko Petek, Uwe Scholz, Maja Zagorščak, Klaas Vandepoele, Michiel Van Bel
Peer Reviewers Sunil Kumar Sahu; Xiaoming Xie
  • Funders
  • ELIXIR under the call for proposals on Biodiversity, Food Safety and Pathogens
  • Federal Ministry of Education and Research
PUBLISHED 28 Jul 2025
https://doi.org/10.12688/f1000research.139906.2
Data Note metrics
Revised
A compilation of histidine kinase genes in the genome of a tissue macerating Pectobacterium brasiliense isolated from potato in South Africa
[version 2; peer review: 1 approved]
Sarah Oluwatobi Otun, Khayalethu Ntushelo
Peer Reviewers Iris Yedidia
LATEST VERSION PUBLISHED 17 Jun 2024
https://doi.org/10.12688/f1000research.144155.1
Genome Note metrics
Long-read datasets of Kayu Bawang (Azadirachta excelsa (Jack) Jacobs) from 3 different identified seed stands in Bengkulu (Sumatra), Indonesia and its phylogenetic relationships
[version 1; peer review: 2 approved with reservations]
Efratenta Katherina Depari, Nurheni Wijayanto, Lina Karlinasari, Mohamad Rafi, Iskandar Zulkarnaen Siregar
Peer Reviewers Hoang Dang Khoa Do; Maria Stefanie Dwiyanti
  • Funder
  • Beasiswa Pendidikan Pascasarjana Dalam Negeri (BPPDN) 2019
PUBLISHED 05 Apr 2024
https://doi.org/10.12688/f1000research.138150.3
Genome Note metrics
Revised
Plastid genome of Passiflora tripartita var. mollissima (poro-poro) from Huánuco, Peru
[version 3; peer review: 2 approved]
Flavio Aliaga, Mario Zapata-Cruz, Silvia Ana Valverde-Zavaleta
Peer Reviewers Rahul G Shelke; Abdullah Abdullah
  • Funder
  • Plant Sience Laboratory
LATEST VERSION PUBLISHED 19 Feb 2024
https://doi.org/10.12688/f1000research.126463.2
Software Tool Article metrics
Revised
A2TEA: Identifying trait-specific evolutionary adaptations
[version 2; peer review: 2 approved]
Tyll Stöcker, Carolin Uebermuth-Feldhaus, Florian Boecker, Heiko Schoof
Peer Reviewers Manuel Aranda and Octavio Salazar Moya; Rahul Siddharthan
LATEST VERSION PUBLISHED 12 Apr 2023
https://doi.org/10.12688/f1000research.122437.2
Research Article metrics
Revised
Genomic prediction in plants: opportunities for ensemble machine learning based approaches
[version 2; peer review: 1 approved, 2 approved with reservations]
Muhammad Farooq, Aalt D.J. van Dijk, Harm Nijveen, Shahid Mansoor, Dick de Ridder
Peer Reviewers Muhammad Tehseen Azhar; Miguel Pérez-Enciso; Yongkang Kim
  • Funder
  • Wageningen University and Research
LATEST VERSION PUBLISHED 10 Jan 2023
https://doi.org/10.12688/f1000research.122453.1
Review metrics
Understanding floral biology for CRISPR-based modification of color and fragrance in horticultural plants
[version 1; peer review: 2 approved with reservations]
Zulqurnain Khan, Asim Razzaq, Tahmina Sattar, Aftab Ahmed, Sultan Habibullah Khan, Muhammad Zubair Ghouri
Peer Reviewers Muhammad Azam; Albert Chern Sun Wong
PUBLISHED 28 Jul 2022
https://doi.org/10.12688/f1000research.74524.1
Brief Report metrics
An Atlas of Plant Transposable Elements
[version 1; peer review: 2 approved]
Daniel Longhi Fernandes Pedro, Tharcisio Soares Amorim, Alessandro Varani, Romain Guyot, Douglas Silva Domingues, Alexandre Rossi Paschoal
Peer Reviewers Gökhan Karakülah; Adriana Ludwig
  • Funders
  • Coordenação de Aperfeiçoamento de Pessoal de Nível Superior - Brasil (CAPES)
  • Conselho Nacional de Desenvolvimento Científico e Tecnológico
  • NAPI de Bioinformática - Fundação Araucária
  • NVIDIA from the GPU Grant Program 2019 - Accelerated Data Science Call for the GPU Seed Units: Titan V device
  • PROPPG - UTFPR
PUBLISHED 24 Nov 2021
https://doi.org/10.12688/f1000research.38156.1
Research Article metrics
Improved chromosome-level genome assembly and annotation of the seagrass, Zostera marina (eelgrass)
[version 1; peer review: 2 approved]
Xiao Ma, Jeanine L. Olsen, Thorsten B.H. Reusch, Gabriele Procaccini, Dave Kudrna, Melissa Williams, Jane Grimwood, Shanmugam Rajasekar, Jerry Jenkins, Jeremy Schmutz, Yves Van de Peer
Peer Reviewers Jarkko Salojärvi; Vratislav Peska
  • Funder
  • the DOE-Joint Genome Institute, Berkeley, CA, USA
PUBLISHED 15 Apr 2021
https://doi.org/10.12688/f1000research.44714.1
Data Note metrics
Draft genome assembly of the biofuel grass crop Miscanthus sacchariflorus
[version 1; peer review: 2 approved]
Jose De Vega, Iain Donnison, Sarah Dyer, Kerrie Farrar
Peer Reviewers Diego Mauricio Riaño-Pachón; Maria Stefanie Dwiyanti
  • Funder
  • Biotechnology and Biological Sciences Research Council
PUBLISHED 18 Jan 2021
1-10 of 10 ARTICLES
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