##### PUB RECORD #####
## 10.1021/jf0304324 14690368 Beninger, Hosfield, 2003 "Beninger CW, Hosfield GL. Antioxidant activity of extracts, condensed tannin fractions, and pure flavonoids from Phaseolus vulgaris L. seed coat color genotypes. J Agric Food Chem. 2003 Dec 31;51(27):7879-83. doi: 10.1021/jf0304324. PMID: 14690368." ##
PMID- 14690368
OWN - NLM
STAT- MEDLINE
DCOM- 20040305
LR - 20220317
IS - 0021-8561 (Print)
IS - 0021-8561 (Linking)
VI - 51
IP - 27
DP - 2003 Dec 31
TI - Antioxidant activity of extracts, condensed tannin fractions, and pure flavonoids
from Phaseolus vulgaris L. seed coat color genotypes.
PG - 7879-83
AB - Twelve different seed coat color genotypes of Phaseolus vulgaris L. were
extracted and pure flavonoids isolated from 10 of these. The seed coat methanol
extracts, tannin fractions, and pure flavonoids all displayed antioxidant
activity in a fluorescence-based liposome assay. The relatively high activity of
the condensed tannin (proanthocyanidin) fractions indicates that these may play
an important role in the overall activity of the extracts. This activity also
indicates that although these polyphenols cause problems in digestibility, they
may be important dietary supplements with beneficial health effects. The pure
anthocyanins delphinidin 3-O-glucoside (1), petunidin 3-O-glucoside (2), and
malvidin 3-O-glucoside (3) and the flavonol quercetin 3-O-glucoside (4) isolated
from seed coats also had significantly higher antioxidant activity than the
Fe(2+) control. The activity of kaempferol 3-O-glucoside (5) was not different
from that of the Fe(2+) control. These findings suggest that variously colored
dry beans may be an important source of dietary antioxidants.
FAU - Beninger, Clifford W
AU - Beninger CW
AD - Agricultural Research Service, U.S. Department of Agriculture, Plant and Soil
Science Building, Michigan State University, East Lansing, Michigan 48824, USA.
cbeninge@uoguelph.ca
FAU - Hosfield, George L
AU - Hosfield GL
LA - eng
PT - Journal Article
PT - Research Support, U.S. Gov't, Non-P.H.S.
PL - United States
TA - J Agric Food Chem
JT - Journal of agricultural and food chemistry
JID - 0374755
RN - 0 (Antioxidants)
RN - 0 (Flavonoids)
RN - 0 (Hydrolyzable Tannins)
RN - 0 (Pigments, Biological)
RN - 0 (Plant Extracts)
SB - IM
MH - Antioxidants/*analysis
MH - Color
MH - Flavonoids/*analysis
MH - Genotype
MH - Hydrolyzable Tannins/*analysis
MH - Phaseolus/*chemistry/genetics
MH - Pigments, Biological/genetics
MH - Plant Extracts/*analysis
MH - Seeds/*chemistry
EDAT- 2003/12/24 05:00
MHDA- 2004/03/06 05:00
CRDT- 2003/12/24 05:00
PHST- 2003/12/24 05:00 [pubmed]
PHST- 2004/03/06 05:00 [medline]
PHST- 2003/12/24 05:00 [entrez]
AID - 10.1021/jf0304324 [doi]
PST - ppublish
SO - J Agric Food Chem. 2003 Dec 31;51(27):7879-83. doi: 10.1021/jf0304324.
##### PUB RECORD #####
## 10.1007/s00425-023-04116-0 36928335 Davila-Delgado, Flores-Canul et al., 2023 "Dávila-Delgado R, Flores-Canúl K, Juárez-Verdayes MA, Sánchez-López R. Rhizobia induce SYMRK endocytosis in Phaseolus vulgaris root hair cells. Planta. 2023 Mar 16;257(4):83. doi: 10.1007/s00425-023-04116-0. PMID: 36928335; PMCID: PMC10020325." ##
PMID- 36928335
OWN - NLM
STAT- MEDLINE
DCOM- 20230321
LR - 20230328
IS - 1432-2048 (Electronic)
IS - 0032-0935 (Print)
IS - 0032-0935 (Linking)
VI - 257
IP - 4
DP - 2023 Mar 16
TI - Rhizobia induce SYMRK endocytosis in Phaseolus vulgaris root hair cells.
PG - 83
LID - 10.1007/s00425-023-04116-0 [doi]
LID - 83
AB - PvSYMRK-EGFP undergoes constitutive and rhizobia-induced endocytosis, which rely
on the phosphorylation status of T589, the endocytic YXXO motif and the kinase
activity of the receptor. Legume-rhizobia nodulation is a complex developmental
process. It initiates when the rhizobia-produced Nod factors are perceived by
specific LysM receptors present in the root hair apical membrane. Consequently,
SYMRK (Symbiosis Receptor-like Kinase) becomes active in the root hair and
triggers an extensive signaling network essential for the infection process and
nodule organogenesis. Despite its relevant functions, the underlying cellular
mechanisms involved in SYMRK signaling activity remain poorly characterized. In
this study, we demonstrated that PvSYMRK-EGFP undergoes constitutive and
rhizobia-induced endocytosis. We found that in uninoculated roots, PvSYMRK-EGFP
is mainly associated with the plasma membrane, although intracellular puncta
labelled with PvSymRK-EGFP were also observed in root hair and nonhair-epidermal
cells. Inoculation with Rhizobium etli producing Nod factors induces in the root
hair a redistribution of PvSYMRK-EGFP from the plasma membrane to intracellular
puncta. In accordance, deletion of the endocytic motif YXXO (YKTL) and treatment
with the endocytosis inhibitors ikarugamycin (IKA) and tyrphostin A23 (TyrA23),
as well as brefeldin A (BFA), drastically reduced the density of intracellular
PvSYMRK-EGFP puncta. A similar effect was observed in the
phosphorylation-deficient (T589A) and kinase-dead (K618E) mutants of
PvSYMRK-EGFP, implying these structural features are positive regulators of
PvSYMRK-EGFP endocytosis. Our findings lead us to postulate that rhizobia-induced
endocytosis of SYMRK modulates the duration and amplitude of the SYMRK-dependent
signaling pathway.
CI - (c) 2023. The Author(s).
FAU - Davila-Delgado, Raul
AU - Davila-Delgado R
AD - Departamento de Biologia Molecular de Plantas, Instituto de Biotecnologia,
Universidad Nacional Autonoma de Mexico, Avenida Universidad 2001, Colonia
Chamilpa, 62210, Cuernavaca, Morelos, Mexico.
FAU - Flores-Canul, Karen
AU - Flores-Canul K
AD - Departamento de Biologia Molecular de Plantas, Instituto de Biotecnologia,
Universidad Nacional Autonoma de Mexico, Avenida Universidad 2001, Colonia
Chamilpa, 62210, Cuernavaca, Morelos, Mexico.
FAU - Juarez-Verdayes, Marco Adan
AU - Juarez-Verdayes MA
AD - Departamento de Biologia Molecular de Plantas, Instituto de Biotecnologia,
Universidad Nacional Autonoma de Mexico, Avenida Universidad 2001, Colonia
Chamilpa, 62210, Cuernavaca, Morelos, Mexico.
FAU - Sanchez-Lopez, Rosana
AU - Sanchez-Lopez R
AUID- ORCID: 0000-0002-1628-7240
AD - Departamento de Biologia Molecular de Plantas, Instituto de Biotecnologia,
Universidad Nacional Autonoma de Mexico, Avenida Universidad 2001, Colonia
Chamilpa, 62210, Cuernavaca, Morelos, Mexico. rosana.sanchez@ibt.unam.mx.
LA - eng
GR - PAPIIT/UNAM IN207215/Programa de Apoyo a Proyectos de Investigacion e Innovacion
Tecnologica/UNAM/
GR - IN206118/Programa de Apoyo a Proyectos de Investigacion e Innovacion
Tecnologica/UNAM/
GR - IN204721/Programa de Apoyo a Proyectos de Investigacion e Innovacion
Tecnologica/UNAM/
GR - PhD fellowship number 288601/Consejo Nacional de Ciencia y Tecnologia (CONACYT)/
GR - post-doctoral fellowship CVU 174751)/Consejo Nacional de Ciencia y Tecnologia
(CONACYT)/
PT - Journal Article
DEP - 20230316
PL - Germany
TA - Planta
JT - Planta
JID - 1250576
RN - 0 (Carrier Proteins)
RN - 0 (Plant Proteins)
SB - IM
MH - Root Nodules, Plant/metabolism
MH - *Phaseolus/metabolism
MH - Plant Root Nodulation
MH - *Rhizobium/physiology
MH - Symbiosis
MH - Carrier Proteins/metabolism
MH - Endocytosis
MH - Plant Roots/metabolism
MH - Plant Proteins/metabolism
PMC - PMC10020325
OTO - NOTNLM
OT - Brefeldin A
OT - Phaseolus vulgaris
OT - Root hair
OT - SYMRK
OT - Symbiosis
OT - Tyrphostin A23
OT - YXXO
COIS- The authors declare no conflict of interest. The funders had no role in the
design of the study; in the collection, analyses, or interpretation of data; in
the writing of the manuscript, or in the decision to publish the results.
EDAT- 2023/03/18 06:00
MHDA- 2023/03/22 06:00
PMCR- 2023/03/16
CRDT- 2023/03/17 09:04
PHST- 2022/08/15 00:00 [received]
PHST- 2023/03/06 00:00 [accepted]
PHST- 2023/03/17 09:04 [entrez]
PHST- 2023/03/18 06:00 [pubmed]
PHST- 2023/03/22 06:00 [medline]
PHST- 2023/03/16 00:00 [pmc-release]
AID - 10.1007/s00425-023-04116-0 [pii]
AID - 4116 [pii]
AID - 10.1007/s00425-023-04116-0 [doi]
PST - epublish
SO - Planta. 2023 Mar 16;257(4):83. doi: 10.1007/s00425-023-04116-0.
##### PUB RECORD #####
## 10.1093/jhered/93.2.148 12140276 McClean, Lee et al., 2002 "McClean PE, Lee RK, Otto C, Gepts P, Bassett MJ. Molecular and phenotypic mapping of genes controlling seed coat pattern and color in common bean (Phaseolus vulgaris L.). J Hered. 2002 Mar-Apr;93(2):148-52. doi: 10.1093/jhered/93.2.148. PMID: 12140276." ##
PMID- 12140276
OWN - NLM
STAT- MEDLINE
DCOM- 20030115
LR - 20220317
IS - 0022-1503 (Print)
IS - 0022-1503 (Linking)
VI - 93
IP - 2
DP - 2002 Mar-Apr
TI - Molecular and phenotypic mapping of genes controlling seed coat pattern and color
in common bean (Phaseolus vulgaris L.).
PG - 148-52
AB - Common bean (Phaseolus vulgaris L.) exhibits a wide variety of seed coat patterns
and colors. From a historical perspective, extensive genetic analyses have
identified specific genes that control seed coat pattern (T, Z, L, J, Bip, and
Ana) and color (P, C, R, J, D, G, B, V, and Rk). Many of these genes exhibit
epistatic interactions with other genes, interactions that define the many seed
coat patterns and colors observed within the species. To better understand these
complex interactions, we began a molecular marker discovery program that
previously identified random amplified polymorphic DNA (RAPD) markers linked to
many of these genes. We report here the discovery of RAPD markers linked to three
additional genes-C, G, and V. These markers, and five RAPD markers we previously
discovered linked to other seed coat pattern and color genes, were converted into
easily scorable sequence tagged site (STS) markers. We next placed these markers
onto a common molecular map shared by the Phaseolus research community and
demonstrated a generally wide distribution of the genes throughout the common
bean genome. A few previously unrecognized linkages were discovered. The probable
existence of multiple genes controlling growth habit in common bean is discussed.
Our approach demonstrates the usefulness and feasibility of marker discovery in
one population followed by accurate mapping of that marker onto a core,
community-wide map.
FAU - McClean, P E
AU - McClean PE
AD - North Dakota State University, Department of Plant Sciences, Fargo, ND 58105,
USA. phillip.mcclean@ndsu.nodak.edu
FAU - Lee, R K
AU - Lee RK
FAU - Otto, C
AU - Otto C
FAU - Gepts, P
AU - Gepts P
FAU - Bassett, M J
AU - Bassett MJ
LA - eng
PT - Journal Article
PL - United States
TA - J Hered
JT - The Journal of heredity
JID - 0375373
RN - 0 (Genetic Markers)
SB - IM
MH - *Chromosome Mapping
MH - Genetic Markers
MH - Phaseolus/*genetics
MH - Random Amplified Polymorphic DNA Technique
MH - Seeds/*genetics
EDAT- 2002/07/26 10:00
MHDA- 2003/01/16 04:00
CRDT- 2002/07/26 10:00
PHST- 2002/07/26 10:00 [pubmed]
PHST- 2003/01/16 04:00 [medline]
PHST- 2002/07/26 10:00 [entrez]
AID - 10.1093/jhered/93.2.148 [doi]
PST - ppublish
SO - J Hered. 2002 Mar-Apr;93(2):148-52. doi: 10.1093/jhered/93.2.148.
##### PUB RECORD #####
## 10.1007/s11032-023-01362-8 37313298 Liu, Yang et al., 2023 "Liu C, Yang X, He Y, Chen Q, Huang Y, Yan Z, Liu D, Feng G. Fine mapping and characterisation of a PV-PUR mediating anthocyanin synthesis in snap bean (Phaseolus vulgaris L.). Mol Breed. 2023 Mar 1;43(3):15. doi: 10.1007/s11032-023-01362-8. PMID: 37313298; PMCID: PMC10248652." ##
PMID- 37313298
OWN - NLM
STAT- PubMed-not-MEDLINE
LR - 20240302
IS - 1572-9788 (Electronic)
IS - 1380-3743 (Print)
IS - 1380-3743 (Linking)
VI - 43
IP - 3
DP - 2023 Mar
TI - Fine mapping and characterisation of a PV-PUR mediating anthocyanin synthesis in
snap bean (Phaseolus vulgaris L.).
PG - 15
LID - 10.1007/s11032-023-01362-8 [doi]
LID - 15
AB - Anthocyanin makes snap bean (Phaseolus vulgaris L.) pods purple, which helps seed
dispersal and protects against environmental stress. In this study, we
characterised the snap bean purple mutant pv-pur, which has purple cotyledon,
hypocotyl, stem, leaf vein, flower and pod tissues. Total anthocyanin,
delphinidin and malvidin levels in mutant pods were significantly higher than in
wild-type plants. We constructed two populations for fine mapping of the PV-PUR
purple mutation gene, located in the 243.9-kb region of chromosome 06. We
identified Phvul.006g018800.3, encoding F3'5'H, as a candidate gene for PV-PUR.
Six single-base mutations occurred in the coding region of this gene, altering
protein structure. PV-PUR and pv-pur genes were transferred into Arabidopsis,
respectively. Compared with the wild-type, the leaf base and internode of
T-PV-PUR plant were purple, and the phenotype of T-pv-pur plant remained
unchanged, which verified the function of the mutant gene. The results
demonstrated that PV-PUR is a crucial gene for anthocyanin biosynthesis in snap
bean, resulting in purple colouration. The findings lay a foundation for future
breeding and improvement of snap bean. SUPPLEMENTARY INFORMATION: The online
version contains supplementary material available at 10.1007/s11032-023-01362-8.
CI - (c) The Author(s), under exclusive licence to Springer Nature B.V. 2023. Springer
Nature or its licensor (e.g. a society or other partner) holds exclusive rights
to this article under a publishing agreement with the author(s) or other
rightsholder(s); author self-archiving of the accepted manuscript version of this
article is solely governed by the terms of such publishing agreement and
applicable law.
FAU - Liu, Chang
AU - Liu C
AD - Horticulture Department, College of Advanced Agriculture and Ecological
Environment, Heilongjiang University, 74 Xuefu Road, Harbin, Heilongjiang, 150000
China. GRID: grid.412067.6. ISNI: 0000 0004 1760 1291
FAU - Yang, Xiaoxu
AU - Yang X
AD - Horticulture Department, College of Advanced Agriculture and Ecological
Environment, Heilongjiang University, 74 Xuefu Road, Harbin, Heilongjiang, 150000
China. GRID: grid.412067.6. ISNI: 0000 0004 1760 1291
FAU - He, Yongheng
AU - He Y
AD - Horticulture Department, College of Advanced Agriculture and Ecological
Environment, Heilongjiang University, 74 Xuefu Road, Harbin, Heilongjiang, 150000
China. GRID: grid.412067.6. ISNI: 0000 0004 1760 1291
FAU - Chen, Qifu
AU - Chen Q
AD - Horticulture Department, College of Advanced Agriculture and Ecological
Environment, Heilongjiang University, 74 Xuefu Road, Harbin, Heilongjiang, 150000
China. GRID: grid.412067.6. ISNI: 0000 0004 1760 1291
FAU - Huang, Yucheng
AU - Huang Y
AD - Horticulture Department, College of Advanced Agriculture and Ecological
Environment, Heilongjiang University, 74 Xuefu Road, Harbin, Heilongjiang, 150000
China. GRID: grid.412067.6. ISNI: 0000 0004 1760 1291
FAU - Yan, Zhishan
AU - Yan Z
AD - Horticulture Department, College of Advanced Agriculture and Ecological
Environment, Heilongjiang University, 74 Xuefu Road, Harbin, Heilongjiang, 150000
China. GRID: grid.412067.6. ISNI: 0000 0004 1760 1291
FAU - Liu, Dajun
AU - Liu D
AD - Horticulture Department, College of Advanced Agriculture and Ecological
Environment, Heilongjiang University, 74 Xuefu Road, Harbin, Heilongjiang, 150000
China. GRID: grid.412067.6. ISNI: 0000 0004 1760 1291
FAU - Feng, Guojun
AU - Feng G
AD - Horticulture Department, College of Advanced Agriculture and Ecological
Environment, Heilongjiang University, 74 Xuefu Road, Harbin, Heilongjiang, 150000
China. GRID: grid.412067.6. ISNI: 0000 0004 1760 1291
LA - eng
PT - Journal Article
DEP - 20230301
PL - Netherlands
TA - Mol Breed
JT - Molecular breeding : new strategies in plant improvement
JID - 9506703
PMC - PMC10248652
OTO - NOTNLM
OT - Anthocyanin
OT - Fine mapping
OT - Mutant
OT - PV-PUR
OT - Snap bean
COIS- Competing interestsThe authors declare no competing interests.
EDAT- 2023/06/14 06:42
MHDA- 2023/06/14 06:43
PMCR- 2024/03/01
CRDT- 2023/06/14 03:54
PHST- 2022/09/13 00:00 [received]
PHST- 2023/02/18 00:00 [accepted]
PHST- 2023/06/14 06:43 [medline]
PHST- 2023/06/14 06:42 [pubmed]
PHST- 2023/06/14 03:54 [entrez]
PHST- 2024/03/01 00:00 [pmc-release]
AID - 1362 [pii]
AID - 10.1007/s11032-023-01362-8 [doi]
PST - epublish
SO - Mol Breed. 2023 Mar 1;43(3):15. doi: 10.1007/s11032-023-01362-8. eCollection 2023
Mar.
##### PUB RECORD #####
## 10.1007/s00122-021-03922-y 34328529 Garcia-Fernandez, Campa et al., 2021 "García-Fernández C, Campa A, Ferreira JJ. Dissecting the genetic control of seed coat color in a RIL population of common bean (Phaseolus vulgaris L.). Theor Appl Genet. 2021 Nov;134(11):3687-3698. doi: 10.1007/s00122-021-03922-y. Epub 2021 Jul 30. PMID: 34328529." ##
PMID- 34328529
OWN - NLM
STAT- MEDLINE
DCOM- 20211028
LR - 20220427
IS - 1432-2242 (Electronic)
IS - 0040-5752 (Linking)
VI - 134
IP - 11
DP - 2021 Nov
TI - Dissecting the genetic control of seed coat color in a RIL population of common
bean (Phaseolus vulgaris L.).
PG - 3687-3698
LID - 10.1007/s00122-021-03922-y [doi]
AB - Three genes associated with the seed coat color in a TU/Musica RIL population
were located on a genetic map, and two candidate genes proposed to control black
seed coat in the TU genotype were characterized. Seed coat color is an important
characteristic of common bean (Phaseolus vulgaris L.) associated with the
marketability of dry bean cultivars, quality and nutritional characteristics of
seed, as well as response to pathogens. In this study, the genetic control of
seed coat color in a recombinant inbred line population (175 lines) obtained from
the cross 'TU' x 'Musica' was investigated. Phenotypic segregation fitted 1:1 for
white vs. nonwhite, and 3:1 for brown versus black, indicating the involvement of
three independent genes, one controlling white color and two (with epistatic
interaction) controlling black color. Using a genetic map built with 842 SNPs,
the gene responsible for the white seed coat was mapped on the linkage group
Pv07, in the position previously described for the P gene. For the black seed
coat phenotype, two genes were mapped to the beginning of chromosomes Pv06 and
Pv08, in the positions estimated for the V gene and the complex C locus,
respectively, by classical studies. The involvement of these two genomic regions
was verified through two crosses between three selected RILs exhibiting
complementary and dominant inheritance, in which the TU alleles for both genes
resulted in a black phenotype. Two genes involved in the anthocyanin biosynthesis
pathway were proposed as candidate genes: Phvul.006G018800 encoding a flavonoid
3'5'hydroxylase and Phvul.008G038400 encoding MYB113 transcription factor. These
findings add knowledge to the complex network of genes controlling seed coat
color in common bean as well as providing genetic markers to be used in future
genetic analysis or plant breeding.
CI - (c) 2021. The Author(s), under exclusive licence to Springer-Verlag GmbH Germany,
part of Springer Nature.
FAU - Garcia-Fernandez, Carmen
AU - Garcia-Fernandez C
AUID- ORCID: 0000-0002-0664-796X
AD - Plant Genetic Group, Regional Service for Agrofood Research and Development
(SERIDA), 33300, Villaviciosa, Asturias, Spain. cgarcia@serida.org.
FAU - Campa, Ana
AU - Campa A
AUID- ORCID: 0000-0003-3970-9079
AD - Plant Genetic Group, Regional Service for Agrofood Research and Development
(SERIDA), 33300, Villaviciosa, Asturias, Spain.
FAU - Ferreira, Juan Jose
AU - Ferreira JJ
AUID- ORCID: 0000-0002-8782-8868
AD - Plant Genetic Group, Regional Service for Agrofood Research and Development
(SERIDA), 33300, Villaviciosa, Asturias, Spain.
LA - eng
GR - AGL2017-87050-R/Ministerio de Economia, Industria y Competitividad, Gobierno de
Espana/
GR - 774244-BRESOV/European Metrology Programme for Innovation and Research/
PT - Journal Article
DEP - 20210730
PL - Germany
TA - Theor Appl Genet
JT - TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik
JID - 0145600
SB - IM
MH - Alleles
MH - Chromosome Mapping
MH - Color
MH - Crosses, Genetic
MH - Genes, Plant
MH - Genetic Linkage
MH - Genotype
MH - Phaseolus/*genetics
MH - Phenotype
MH - Pigmentation/*genetics
MH - Polymorphism, Single Nucleotide
MH - *Seeds
EDAT- 2021/07/31 06:00
MHDA- 2021/10/29 06:00
CRDT- 2021/07/30 12:20
PHST- 2021/04/06 00:00 [received]
PHST- 2021/07/20 00:00 [accepted]
PHST- 2021/07/31 06:00 [pubmed]
PHST- 2021/10/29 06:00 [medline]
PHST- 2021/07/30 12:20 [entrez]
AID - 10.1007/s00122-021-03922-y [pii]
AID - 10.1007/s00122-021-03922-y [doi]
PST - ppublish
SO - Theor Appl Genet. 2021 Nov;134(11):3687-3698. doi: 10.1007/s00122-021-03922-y.
Epub 2021 Jul 30.
##### PUB RECORD #####
## 10.3389/fpls.2022.869582 35432409 McClean, Lee et al., 2022 "McClean PE, Lee R, Howe K, Osborne C, Grimwood J, Levy S, Haugrud AP, Plott C, Robinson M, Skiba RM, Tanha T, Zamani M, Thannhauser TW, Glahn RP, Schmutz J, Osorno JM, Miklas PN. The Common Bean V Gene Encodes Flavonoid 3'5' Hydroxylase: A Major Mutational Target for Flavonoid Diversity in Angiosperms. Front Plant Sci. 2022 Mar 31;13:869582. doi: 10.3389/fpls.2022.869582. PMID: 35432409; PMCID: PMC9009181." ##
PMID- 35432409
OWN - NLM
STAT- PubMed-not-MEDLINE
LR - 20240927
IS - 1664-462X (Print)
IS - 1664-462X (Electronic)
IS - 1664-462X (Linking)
VI - 13
DP - 2022
TI - The Common Bean V Gene Encodes Flavonoid 3'5' Hydroxylase: A Major Mutational
Target for Flavonoid Diversity in Angiosperms.
PG - 869582
LID - 10.3389/fpls.2022.869582 [doi]
LID - 869582
AB - The classic V (violet, purple) gene of common bean (Phaseolus vulgaris) functions
in a complex genetic network that controls seed coat and flower color and
flavonoid content. V was cloned to understand its role in the network and the
evolution of its orthologs in the Viridiplantae. V mapped genetically to a narrow
interval on chromosome Pv06. A candidate gene was selected based on flavonoid
analysis and confirmed by recombinational mapping. Protein and domain modeling
determined V encodes flavonoid 3'5' hydroxylase (F3'5'H), a P450 enzyme required
for the expression of dihydromyricetin-derived flavonoids in the flavonoid
pathway. Eight recessive haplotypes, defined by mutations of key functional
domains required for P450 activities, evolved independently in the two bean gene
pools from a common ancestral gene. V homologs were identified in Viridiplantae
orders by functional domain searches. A phylogenetic analysis determined F3'5'H
first appeared in the Streptophyta and is present in only 41% of Angiosperm
reference genomes. The evolutionarily related flavonoid pathway gene flavonoid 3'
hydroxylase (F3'H) is found nearly universally in all Angiosperms. F3'H may be
conserved because of its role in abiotic stress, while F3'5'H evolved as a major
target gene for the evolution of flower and seed coat color in plants.
CI - Copyright (c) 2022 McClean, Lee, Howe, Osborne, Grimwood, Levy, Haugrud, Plott,
Robinson, Skiba, Tanha, Zamani, Thannhauser, Glahn, Schmutz, Osorno and Miklas.
FAU - McClean, Phillip E
AU - McClean PE
AD - Department of Plant Sciences, North Dakota State University, Fargo, ND, United
States.
AD - Genomics, Phenomics, and Bioinformatic Program, North Dakota State University,
Fargo, ND, United States.
FAU - Lee, Rian
AU - Lee R
AD - Department of Plant Sciences, North Dakota State University, Fargo, ND, United
States.
FAU - Howe, Kevin
AU - Howe K
AD - USDA-ARS, Robert W. Holley Center for Agriculture and Health, Cornell University,
Ithaca, NY, United States.
FAU - Osborne, Caroline
AU - Osborne C
AD - Department of Plant Sciences, North Dakota State University, Fargo, ND, United
States.
FAU - Grimwood, Jane
AU - Grimwood J
AD - Genome Sequencing Center, HudsonAlpha Institute for Biotechnology, Huntsville,
AL, United States.
FAU - Levy, Shawn
AU - Levy S
AD - Genome Sequencing Center, HudsonAlpha Institute for Biotechnology, Huntsville,
AL, United States.
FAU - Haugrud, Amanda Peters
AU - Haugrud AP
AD - Genomics, Phenomics, and Bioinformatic Program, North Dakota State University,
Fargo, ND, United States.
FAU - Plott, Chris
AU - Plott C
AD - Genome Sequencing Center, HudsonAlpha Institute for Biotechnology, Huntsville,
AL, United States.
FAU - Robinson, Melanie
AU - Robinson M
AD - Genome Sequencing Center, HudsonAlpha Institute for Biotechnology, Huntsville,
AL, United States.
FAU - Skiba, Ryan M
AU - Skiba RM
AD - Genomics, Phenomics, and Bioinformatic Program, North Dakota State University,
Fargo, ND, United States.
FAU - Tanha, Tabassum
AU - Tanha T
AD - Genomics, Phenomics, and Bioinformatic Program, North Dakota State University,
Fargo, ND, United States.
FAU - Zamani, Mariam
AU - Zamani M
AD - Genomics, Phenomics, and Bioinformatic Program, North Dakota State University,
Fargo, ND, United States.
FAU - Thannhauser, Theodore W
AU - Thannhauser TW
AD - USDA-ARS, Robert W. Holley Center for Agriculture and Health, Cornell University,
Ithaca, NY, United States.
FAU - Glahn, Raymond P
AU - Glahn RP
AD - USDA-ARS, Robert W. Holley Center for Agriculture and Health, Cornell University,
Ithaca, NY, United States.
FAU - Schmutz, Jeremy
AU - Schmutz J
AD - Genome Sequencing Center, HudsonAlpha Institute for Biotechnology, Huntsville,
AL, United States.
FAU - Osorno, Juan M
AU - Osorno JM
AD - Department of Plant Sciences, North Dakota State University, Fargo, ND, United
States.
FAU - Miklas, Phillip N
AU - Miklas PN
AD - USDA-ARS, Grain Legumes Genetics and Physiology Research Unit, Prosser, WA,
United States.
LA - eng
PT - Journal Article
DEP - 20220331
PL - Switzerland
TA - Front Plant Sci
JT - Frontiers in plant science
JID - 101568200
PMC - PMC9009181
OTO - NOTNLM
OT - F3'5' hydroxylase
OT - common bean
OT - flavonoid biosynthesis
OT - flavonoid composition
OT - legumes
OT - mutational targets
OT - protein modeling
OT - recombination mapping
COIS- The authors declare that the research was conducted in the absence of any
commercial or financial relationships that could be construed as a potential
conflict of interest.
EDAT- 2022/04/19 06:00
MHDA- 2022/04/19 06:01
PMCR- 2022/01/01
CRDT- 2022/04/18 06:34
PHST- 2022/02/04 00:00 [received]
PHST- 2022/03/15 00:00 [accepted]
PHST- 2022/04/18 06:34 [entrez]
PHST- 2022/04/19 06:00 [pubmed]
PHST- 2022/04/19 06:01 [medline]
PHST- 2022/01/01 00:00 [pmc-release]
AID - 10.3389/fpls.2022.869582 [doi]
PST - epublish
SO - Front Plant Sci. 2022 Mar 31;13:869582. doi: 10.3389/fpls.2022.869582.
eCollection 2022.
##### PUB RECORD #####
## 10.1002/ppp3.10132 34268482 Islam, Bett et al., 2020 "Islam NS, Bett KE, Pauls KP, Marsolais F, Dhaubhadel S. Postharvest seed coat darkening in pinto bean (Phaseolus vulgaris) is regulated by Psd , an allele of the basic helix-loop-helix transcription factor P. Plants People Planet. 2020 Nov;2(6):663-677. doi: 10.1002/ppp3.10132. Epub 2020 Aug 19. PMID: 34268482; PMCID: PMC8262261." ##
PMID- 34268482
OWN - NLM
STAT- PubMed-not-MEDLINE
LR - 20240402
IS - 2572-2611 (Electronic)
IS - 2572-2611 (Linking)
VI - 2
IP - 6
DP - 2020 Nov
TI - Postharvest seed coat darkening in pinto bean (Phaseolus vulgaris) is regulated
by P(sd) , an allele of the basic helix-loop-helix transcription factor P.
PG - 663-677
LID - 10.1002/ppp3.10132 [doi]
AB - Pinto bean (Phaseolus vulgaris) is one of the leading market classes of dry beans
that is most affected by postharvest seed coat darkening. The process of seed
darkening poses a challenge for bean producers and vendors as they encounter
significant losses in crop value due to decreased consumer preference for darker
beans. Here, we identified a novel allele of the P gene, P(sd) , responsible for
the slow darkening seed coat in pintos, and identified trait-specific sequence
polymorphisms which are utilized for the development of new gene-specific
molecular markers for breeding. These tools can be deployed to help tackle this
economically important issue for bean producers. SUMMARY: Postharvest seed coat
darkening in pinto bean is an undesirable trait that reduces the market value of
the stored crop. Regular darkening (RD) pintos darken faster after harvest and
accumulate higher level of proanthocyanidins (PAs) compared to slow darkening
(SD) cultivars. Although the markers cosegregating with the SD trait have been
known for some time, the SLOW DARKENING (Sd) gene identity had not been
proven.Here, we identified P(sd) as a candidate for controlling the trait.
Genetic complementation, transcript abundance, metabolite analysis, and
inheritance study confirmed that P(sd) is the Sd gene. P(sd) is another allele of
the P (Pigment) gene, whose loss-of-function alleles result in a white seed coat.
P(sd) encodes a bHLH transcription factor with two transcript variants but only
one is involved in PA biosynthesis. An additional glutamate residue in the
activation domain, and/or an arginine to histidine substitution in the bHLH
domain of the P(sd)-1 transcript in the SD cultivar is likely responsible for the
reduced activity of this allele compared to the allele in a RD cultivar, leading
to reduced PA accumulation.Overall, we demonstrate that a novel allele of P,
P(sd) , is responsible for the SD phenotype, and describe the development of new,
gene-specific, markers that could be utilized in breeding to resolve an
economically important issue for bean producers.
CI - (c) 2020 Her Majesty the Queen in Right of Canada. Plants, People, Planet published
by John Wiley & Sons Ltd on behalf of New Phytologist Trust. Reproduced with the
permission of Minister of Agriculture and Agri-Food Canada.
FAU - Islam, Nishat S
AU - Islam NS
AD - London Research and Development Centre Agriculture and Agri-Food Canada London ON
Canada.
AD - Department of Biology University of Western Ontario London ON Canada.
FAU - Bett, Kirstin E
AU - Bett KE
AUID- ORCID: 0000-0001-7959-6959
AD - Department of Plant Sciences University of Saskatchewan Saskatoon SK Canada.
FAU - Pauls, K Peter
AU - Pauls KP
AD - Department of Plant Agriculture University of Guelph Guelph ON Canada.
FAU - Marsolais, Frederic
AU - Marsolais F
AD - London Research and Development Centre Agriculture and Agri-Food Canada London ON
Canada.
AD - Department of Biology University of Western Ontario London ON Canada.
FAU - Dhaubhadel, Sangeeta
AU - Dhaubhadel S
AUID- ORCID: 0000-0003-2582-5503
AD - London Research and Development Centre Agriculture and Agri-Food Canada London ON
Canada.
AD - Department of Biology University of Western Ontario London ON Canada.
LA - eng
PT - Journal Article
DEP - 20200819
PL - United States
TA - Plants People Planet
JT - Plants, people, planet
JID - 9918227264106676
PMC - PMC8262261
OTO - NOTNLM
OT - Basic helix-loop-helix transcription factor
OT - genetic complementation
OT - gene-specific marker
OT - pinto bean
OT - postharvest seed coat darkening
OT - proanthocyanidins
OT - transparent testa
EDAT- 2021/07/17 06:00
MHDA- 2021/07/17 06:01
PMCR- 2021/07/07
CRDT- 2021/07/16 06:43
PHST- 2020/03/11 00:00 [received]
PHST- 2020/06/18 00:00 [revised]
PHST- 2020/06/19 00:00 [accepted]
PHST- 2021/07/16 06:43 [entrez]
PHST- 2021/07/17 06:00 [pubmed]
PHST- 2021/07/17 06:01 [medline]
PHST- 2021/07/07 00:00 [pmc-release]
AID - PPP310132 [pii]
AID - 10.1002/ppp3.10132 [doi]
PST - ppublish
SO - Plants People Planet. 2020 Nov;2(6):663-677. doi: 10.1002/ppp3.10132. Epub 2020
Aug 19.
##### PUB RECORD #####
## 10.1111/nph.15259 29897103 McClean, Bett et al., 2018 "McClean PE, Bett KE, Stonehouse R, Lee R, Pflieger S, Moghaddam SM, Geffroy V, Miklas P, Mamidi S. White seed color in common bean (Phaseolus vulgaris) results from convergent evolution in the P (pigment) gene. New Phytol. 2018 Aug;219(3):1112-1123. doi: 10.1111/nph.15259. Epub 2018 Jun 13. PMID: 29897103." ##
PMID- 29897103
OWN - NLM
STAT- MEDLINE
DCOM- 20190927
LR - 20200930
IS - 1469-8137 (Electronic)
IS - 0028-646X (Linking)
VI - 219
IP - 3
DP - 2018 Aug
TI - White seed color in common bean (Phaseolus vulgaris) results from convergent
evolution in the P (pigment) gene.
PG - 1112-1123
LID - 10.1111/nph.15259 [doi]
AB - The presence of seed color in common bean (Phaseolus vulgaris) requires the
dominant-acting P (pigment) gene, and white seed is a recessive phenotype in all
domesticated races of the species. P was classically associated with seed size,
thus describing it as the first genetic marker for a quantitative trait. The
molecular structure of P was characterized to understand the selection of white
seeds during bean diversification and the relationship of P to seed weight. P was
identified by homology searches, a genome-wide association study (GWAS) and gene
remodeling, and confirmed by gene silencing. Allelic variation was assessed by a
combination of resequencing and marker development, and the relationship between
P and seed weight was assessed by a GWAS study. P is a member of clade B of
subclass IIIf of plant basic helix-loop-helix (bHLH) proteins. Ten race-specific
P alleles conditioned the white seed phenotype, and each causative mutation
affected at least one bHLH domain required for color expression. GWAS analysis
confirmed the classic association of P with seed weight. In common bean, white
seeds are the result of convergent evolution and, among plant species,
orthologous convergence on a single transcription factor gene was observed.
CI - (c) 2018 The Authors. New Phytologist (c) 2018 New Phytologist Trust.
FAU - McClean, Phillip E
AU - McClean PE
AUID- ORCID: 0000-0002-4809-0864
AD - Department of Plant Sciences, North Dakota State University, Fargo, ND, 58108,
USA.
AD - Genomics and Bioinformatics Program, North Dakota State University, Fargo, ND,
58108, USA.
FAU - Bett, Kirstin E
AU - Bett KE
AD - Department of Plant Sciences, University of Saskatchewan, Saskatoon, SK, S7N 5A8,
Canada.
FAU - Stonehouse, Robert
AU - Stonehouse R
AD - Department of Plant Sciences, University of Saskatchewan, Saskatoon, SK, S7N 5A8,
Canada.
FAU - Lee, Rian
AU - Lee R
AD - Department of Plant Sciences, North Dakota State University, Fargo, ND, 58108,
USA.
FAU - Pflieger, Stephanie
AU - Pflieger S
AD - Institute of Plant Sciences Paris Saclay IPS2, CNRS, INRA, Universite Paris-Sud,
Universite Evry, Universite Paris-Saclay, Batiment 630, Orsay, 91405, France.
AD - Institute of Plant Sciences Paris-Saclay IPS2, Paris Diderot, Sorbonne
Paris-Cite, Batiment 630, Orsay, 91405, France.
FAU - Moghaddam, Samira Mafi
AU - Moghaddam SM
AD - Department of Plant Sciences, North Dakota State University, Fargo, ND, 58108,
USA.
FAU - Geffroy, Valerie
AU - Geffroy V
AD - Institute of Plant Sciences Paris Saclay IPS2, CNRS, INRA, Universite Paris-Sud,
Universite Evry, Universite Paris-Saclay, Batiment 630, Orsay, 91405, France.
AD - Institute of Plant Sciences Paris-Saclay IPS2, Paris Diderot, Sorbonne
Paris-Cite, Batiment 630, Orsay, 91405, France.
FAU - Miklas, Phil
AU - Miklas P
AD - USDA-ARS, Grain Legumes Genetics and Physiology Research Unit, Prosser, WA,
99350, USA.
FAU - Mamidi, Sujan
AU - Mamidi S
AUID- ORCID: 0000-0002-3837-6121
AD - Department of Plant Sciences, North Dakota State University, Fargo, ND, 58108,
USA.
LA - eng
PT - Journal Article
DEP - 20180613
PL - England
TA - New Phytol
JT - The New phytologist
JID - 9882884
SB - IM
MH - Alleles
MH - Chromosome Mapping
MH - *Evolution, Molecular
MH - Gene Regulatory Networks
MH - Gene Silencing
MH - *Genes, Plant
MH - Genome-Wide Association Study
MH - Haplotypes/genetics
MH - Phaseolus/*genetics/*physiology
MH - Phylogeny
MH - Pigmentation/*genetics
MH - Quantitative Trait Loci/genetics
MH - Seeds/*genetics
OTO - NOTNLM
OT - Phaseolus vulgaris
OT - basic helix-loop-helix (bHLH)
OT - convergent evolution
OT - diversification
OT - domestication
OT - flavonoid biosynthesis
EDAT- 2018/06/14 06:00
MHDA- 2019/09/29 06:00
CRDT- 2018/06/14 06:00
PHST- 2018/01/11 00:00 [received]
PHST- 2018/04/20 00:00 [accepted]
PHST- 2018/06/14 06:00 [pubmed]
PHST- 2019/09/29 06:00 [medline]
PHST- 2018/06/14 06:00 [entrez]
AID - 10.1111/nph.15259 [doi]
PST - ppublish
SO - New Phytol. 2018 Aug;219(3):1112-1123. doi: 10.1111/nph.15259. Epub 2018 Jun 13.