Supplementary data to Evolutionary Dynamics of the Proanthocyanidin Biosynthesis Gene LAR

Name: Supplementary data to Evolutionary Dynamics of the Proanthocyanidin Biosynthesis Gene LAR
Published: 2025-08-22
License: http://creativecommons.org/licenses/by/4.0

Open this dataset in the live repository

Important usage condition: Use and redistribution are governed by CC BY 4.0. Review and comply with the license before using the data.

Persistent identifier: doi:10.60507/FK2/UKAAO0
Published version: 2.0
Publication date: 2025-08-22
License: CC BY 4.0

Description

This dataset contains supplementary files associated with the manuscript "Evolutionary Dynamics of the Proanthocyanidin Biosynthesis Gene LAR", which investigates the evolutionary divergence, sequence variation, promoter motif composition, and coexpression patterns of LAR1 and LAR2 genes across multiple plant lineages. Supplementary materials include statistical analysis outputs, gene expression data, polypeptide sequences, sequence conservation values, cis-regulatory element data, BAM files with aligned RNA-seq reads around the LAR1 and LAR2 loci, and synteny results.

Creators

Marín Recinos, María Fernanda
Pucker, Boas

Keywords

Proanthocyanidin, Leucoanthocyanidin reductase, Flavonoid biosynthesis, Gene duplication, Evolution, Subfunctionalization, LAR1, LAR2

Files

Before downloading: Use and redistribution are governed by CC BY 4.0. Review and comply with the license before using the data.

File	Type	Bytes	Checksum
Additional_file_4A-frequency_CRE_Tcacao.csv	text/csv	2168	MD5 6d1f242febe0ab9e25c7f65cfdacfe07
Additional_file_1B-GE_Ghirsutum_LAR.csv	text/csv	48899	MD5 eec60e9f8f6ae39a2327f8ae8c7b461c
Additional_file_1B-GE_Vvinifera_LAR.csv	text/csv	10558	MD5 13db6c3ff823c79e98e9829673d4e421
Additional_file_1B-GE_Ppinaster_LAR.csv	text/csv	3794	MD5 414286e37947dc36865c3e586d580909
Additional_file_2D_AA_gymnosperm_LARII.fasta	application/octet-stream	5264	MD5 041f5337f0fbbbbe622d11587a0e68ee
Additional_file_4A-CRE_Vvinifera_LAR2.csv	text/csv	11559	MD5 690097ce363c10f05ed4704a0566ff8f
Additional_file_3-coexp_GE_Vvinifera_LAR2.csv	text/csv	2616	MD5 530131935045c4470293b68e38e011cc
Additional_file_1B-GE_Tchinensis_LAR.csv	text/csv	3105	MD5 0dfa1a89b751e322a6a4c471c0ae500f
Additional_file_4A-frequency_CRE_Vvinifera.csv	text/csv	2194	MD5 da4dac6c58209d6087fac89e8e468f9c
Additional_file_2A_Gymnosperm_LAR_scores.csv	text/csv	68664	MD5 2e48136108214111028d6d3782948d89
Additional_file_4E_LAR_reads_mapping_Moleifera.bam	application/gzip	6170096	MD5 39ca19c8b59f574a734177b652d3942a
Additional_file_4A-CRE_Moleifera_LAR1.csv	text/csv	13392	MD5 b526c9ea3588b581a13c6e9ac21ad823
Additional_file_2F_AA_dicot_LAR2.fasta	application/octet-stream	17978	MD5 ed9e70b054a99ee4f44ed826f3a71922
Additional_file_3-coexp_GE_Moleifera_LAR1.csv	text/csv	124250	MD5 380fa83df654cffcaaa8f2e11de3e63e
Additional_file_6A_AA_LAR_ANR_DFR.fasta	application/octet-stream	414592	MD5 482e4909f86ac25b7c526fd034982b45
Additional_file_1A-statistic_analysis.pdf	application/pdf	1834259	MD5 77f1445f02f9eda125aeb41dbd40ea02
Additional_file_4A-CRE_Moleifera_LAR2.csv	text/csv	13328	MD5 51ce4e867aa5c9c9367fca7412369852
Additional_file_3-coexp_GE_Vvinifera_LAR1.csv	text/csv	50361	MD5 f29ab9900dbed99ea6debd856c4a58cf
Additional_file_2C_AA_gymnosperm_LARI.fasta	application/octet-stream	14580	MD5 d1f320c59071a94caec347bc7cde6275
Additional_file_5_sinteny_LAR1_brassicales.csv	text/csv	4471	MD5 9c2f74bf6eec197ccc31233e1bdc7be8
Additional_file_3-coexp_GE_Tcacao_LAR1.csv	text/csv	229934	MD5 6c115ef39ba811b8caa67af5c30e3f9b
Additional_file_2B_conservation_barplot.pdf	application/pdf	109869	MD5 8d8be4518d2e01e40c3188a1ef945ebc
Additional_file_1B-GE_Mrubra_LAR.csv	text/csv	4630	MD5 29892a0f1d09521dc082223884577a2d
Additional_file_1B-GE_Achinensis_LAR.csv	text/csv	12282	MD5 19897bad6331dfcbfe5ace4e80528813
Additional_file_1B-GE_Gbiloba_LAR.csv	text/csv	15044	MD5 8ca2ffd7274ae544587611814b9ceb1b
Additional_file_4A-CRE_Tcacao_LAR1.csv	text/csv	13815	MD5 4a3b336760cc8a7d76831a68a9993cb9
Additional_file_1C-phylogenetic_tree.pdf	application/pdf	129333	MD5 5ebbeef5df5ea071b2f28ea8cb7b1c69
Additional_file_4C_promoters_UTR.fa	application/octet-stream	10731	MD5 c9ca433fef34a19f2c4a863be828957e
Additional_file_5_sinteny_LAR1.csv	text/csv	2681	MD5 aec95a95e88bc3a58d15c54162a28f68
Additional_file_1B-GE_Cillinoinensis_LAR.csv	text/csv	3134	MD5 b29dc8af7ad55da12521b6343e9a116b
Additional_file_4B_SRA_accessions.csv	text/csv	1908	MD5 6aeccb242d62c6babdfb56d9feaf8e16
Additional_file_1B-GE_Egrandis_LAR.csv	text/csv	6242	MD5 1e1e23da8066a4dfde2849b5c33d7dca
Additional_file_6B_CDS_LAR_ANR_DFR.fasta	application/octet-stream	742347	MD5 3fbe7af9ad0629bf38b73770a76d90f0
Additional_file_1B-GE_Ptrichocarpa_LAR.csv	text/csv	57701	MD5 ef2ecd7e609f41f1965193e0829a1021
Additional_file_1B-GE_Tcacao_LAR.csv	text/csv	14937	MD5 5cec7d1b00ea907fdc8b3ae40f28af11
Additional_file_4A-frequency_CRE_Moleifera.csv	text/csv	2289	MD5 dae72af5a3b307490da9bb520e00c550
Additional_file_1B-GE_Psitchensis_LAR.csv	text/csv	11271	MD5 e582633f42b20ec6e632409666792069
Additional_file_1B-GE_Tplicata_LAR.csv	text/csv	5237	MD5 2d82f0931d648e83dc4b94fa40c17197
Additional_file_5_sinteny_LAR2.csv	text/csv	4333	MD5 f31c5523783b88d12c6a29d0a94682bd
Additional_file_2E_AA_dicot_LAR1.fasta	application/octet-stream	43703	MD5 58a20b3d601c57633edf537587f36f53
Additional_file_4D_LAR_reads_mapping_Tcacao.bam	application/gzip	8257300	MD5 898b2d90fcc8fecb4b364cf5c498a3d9
Additional_file_1B-GE_Moleifera_LAR.csv	text/csv	1876	MD5 2dfce526c0de9a2217ae507f4ae172b1
Additional_file_3-coexp_GE_Moleifera_LAR2.csv	text/csv	36603	MD5 becd1e57ce78cbe50502543bea6b2bb7
Additional_file_4A-CRE_Vvinifera_LAR1.csv	text/csv	10611	MD5 70fcafae6a7e722aca3227c60e635c61
Additional_file_3-coexp_GE_Tcacao_LAR2.csv	text/csv	266087	MD5 99bb46ba745cec4a570bf9c05404fde6
Additional_file_4A-CRE_Tcacao_LAR2.csv	text/csv	12471	MD5 fcf6a99fcc81a8c8381f341321ec2e1a
Additional_file_2A_Dicots_LAR_scores.csv	text/csv	109553	MD5 0fb7f94c7a51c305b91cd9f2f327ab5c
Additional_file_1D-gene-positions.csv	text/csv	2613	MD5 1c9d8e9eed0fb82da2529f87fc2fd677
20251107_README_LAR_Evolution.txt	text/plain	10378	MD5 98cf7e70d8c6153cc490c71b5891116c

Citation

Marín Recinos, María Fernanda; Pucker, Boas, 2025-08-22, Supplementary data to Evolutionary Dynamics of the Proanthocyanidin Biosynthesis Gene LAR, doi:10.60507/FK2/UKAAO0, V2.0

Additional Dataverse fields

Id	518
Dataset Type	dataset
Internal Version Number	8
Latest Version Publishing State	RELEASED
Release Time	2025-11-10T09:02:57Z
Create Time	2025-11-07T15:08:35Z
Citation Date	2025-08-22
File Access Request	True

Export metadata

Static metadata exports available for this published dataset version:

Complete Dataverse metadata

Citation Metadata

Title title

Supplementary data to Evolutionary Dynamics of the Proanthocyanidin Biosynthesis Gene LAR

Author author

Author Name
Marín Recinos, María Fernanda
Author Affiliation
University of Bonn
Author Identifier Scheme
ORCID
Author Identifier
Type Name
authorIdentifier
Multiple
False
Type Class
primitive
Value
https://orcid.org/0000-0001-5575-1264
Expandedvalue
Person Name
Marín Recinos, María Fernanda
@id
https://orcid.org/0000-0001-5575-1264
Scheme
ORCID
@type
https://schema.org/Person
Author Name
Pucker, Boas
Author Affiliation
University of Bonn
Author Identifier Scheme
ORCID
Author Identifier
Type Name
authorIdentifier
Multiple
False
Type Class
primitive
Value
https://orcid.org/0000-0002-3321-7471
Expandedvalue
Person Name
Pucker, Boas
@id
https://orcid.org/0000-0002-3321-7471
Scheme
ORCID
@type
https://schema.org/Person

Dataset Contact datasetContact

Dataset Contact Name
Pucker, Boas
Dataset Contact Affiliation
University of Bonn
Dataset Contact Email
pucker@uni-bonn.de

Ds Description dsDescription

Ds Description Value
This dataset contains supplementary files associated with the manuscript "Evolutionary Dynamics of the Proanthocyanidin Biosynthesis Gene LAR", which investigates the evolutionary divergence, sequence variation, promoter motif composition, and coexpression patterns of LAR1 and LAR2 genes across multiple plant lineages. Supplementary materials include statistical analysis outputs, gene expression data, polypeptide sequences, sequence conservation values, cis-regulatory element data, BAM files with aligned RNA-seq reads around the LAR1 and LAR2 loci, and synteny results.
Ds Description Date
2025-08-21

Subject subject

Other

Subject Refinement subjectRefinement

Subject Refinement Value
Plant Sciences [202]

Free Keyword freeKeyword

Free Keyword Value
Proanthocyanidin
Free Keyword Value
Leucoanthocyanidin reductase
Free Keyword Value
Flavonoid biosynthesis
Free Keyword Value
Gene duplication
Free Keyword Value
Evolution
Free Keyword Value
Subfunctionalization
Free Keyword Value
LAR1
Free Keyword Value
LAR2

Publication publication

Publication Relation Type
IsSupplementTo
Publication Citation
Marin-Recinos M and Pucker B. (2025). Evolutionary Dynamics of the Proanthocyanidin Biosynthesis Gene LAR. bioRxiv 2025.08.06.668978
Publication IDType
doi
Publication URL
https://doi.org/10.1101/2025.08.06.668978

Language language

English

Depositor depositor

Marin Recinos, Maria

Date Of Deposit dateOfDeposit

2025-08-15

Date Of Collection dateOfCollection

Date Of Collection Start
2023-06-21
Date Of Collection End
2025-08-05

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