Genetic control of inflorescence architecture in legumes

Benlloch, Reyes; Berbel, Ana; Ali, Latifeh; Gohari, Gholamreza; Millán, Teresa; Madueño, Francisco

doi:10.3389/fpls.2015.00543

Cited by 83 publications

(96 citation statements)

References 118 publications

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“…The growth habit is a crucial determinant of plant architecture and plays a key role in influencing various seed and pod yield component traits in chickpea as well as adaptation of its plant-type to diverse agroecological environments. The plant growth habit is thus a complex yield contributing quantitative trait and usually governed by convoluted interplay of multiple genes/QTLs (quantitative trait loci) especially regulating diverse developmental processes in chickpea (Benlloch et al 2015).…”

Section: Introductionmentioning

confidence: 99%

Genetic dissection of plant growth habit in chickpea

Upadhyaya

Bajaj

Srivastava

et al. 2017

Funct Integr Genomics

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A combinatorial genomics-assisted breeding strategy encompassing association analysis, genetic mapping and expression profiling is found most promising for quantitative dissection of complex traits in crop plants. The present study employed GWAS (genome-wide association study) using 24,405 SNPs (single nucleotide polymorphisms) obtained with genotyping-by-sequencing (GBS) of 92 sequenced desi and kabuli accessions of chickpea. This identified eight significant genomic loci associated with erect (E)/semi-erect (SE) vs. spreading (S)/semi-spreading (SS)/prostrate (P) plant growth habit (PGH) trait differentiation regardless of diverse desi and kabuli genetic backgrounds of chickpea. These associated SNPs in combination explained 23.8% phenotypic variation for PGH in chickpea. Five PGH-associated genes were validated successfully in E/SE and SS/S/P PGH-bearing parental accessions and homozygous individuals of three intra- and interspecific RIL (recombinant inbred line) mapping populations as well as 12 contrasting desi and kabuli chickpea germplasm accessions by selective genotyping through Sequenom MassARRAY. The shoot apical, inflorescence and floral meristems-specific expression, including upregulation (seven-fold) of five PGH-associated genes especially in germplasm accessions and homozygous RIL mapping individuals contrasting with E/SE PGH traits was apparent. Collectively, this integrated genomic strategy delineated diverse non-synonymous SNPs from five candidate genes with strong allelic effects on PGH trait variation in chickpea. Of these, two vernalization-responsive non-synonymous SNP alleles carrying SNF2 protein-coding gene and B3 transcription factor associated with PGH traits were found to be the most promising in chickpea. The SNP allelic variants associated with E/SE/SS/S PGH trait differentiation were exclusively present in all cultivated desi and kabuli chickpea accessions while wild species/accessions belonging to primary, secondary and tertiary gene pools mostly contained prostrate PGH-associated SNP alleles. This indicates strong adaptive natural/artificial selection pressure (Tajima's D 3.15 to 4.57) on PGH-associated target genomic loci during chickpea domestication. These vital leads thus have potential to decipher complex transcriptional regulatory gene function of PGH trait differentiation and for understanding the selective sweep-based PGH trait evolution and domestication pattern in cultivated and wild chickpea accessions adapted to diverse agroclimatic conditions. Collectively, the essential inputs generated will be of profound use in marker-assisted genetic enhancement to develop cultivars with desirable plant architecture of erect growth habit types in chickpea.

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Section: Introductionmentioning

confidence: 99%

Genetic dissection of plant growth habit in chickpea

Upadhyaya

Bajaj

Srivastava

et al. 2017

Funct Integr Genomics

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“…Within the legumes, the value of a comparative approach to candidate gene identification has led to the characterization of the molecular identity of TFL1 co-orthologs such as FIN in common bean (designated as PvTFL1y ; Repinski et al, 2012); Dt1 in soybean ( GmTFL1 ; Tian et al, 2010); and DETERMINATE ( DET ; PsTFL1a ) and LATE FLOWERING ( LF ; PsTFL1c ) in pea (Foucher et al, 2003; Weller and Ortega, 2015). Recent findings have clearly shown that in several legume species, determinate inflorescence architecture is conferred by mutation of specific TFL1 genes (Benlloch et al, 2015). The determinate growth habit caused by mutations within specific TFL1 -homologs in other grain legumes indicates that the determinate function is conserved in these species (Kong et al, 2010; Tian et al, 2010; Kwak et al, 2012; Repinski et al, 2012; Dhanasekar and Reddy, 2014).…”

Section: Introductionmentioning

confidence: 99%

Major Contribution of Flowering Time and Vegetative Growth to Plant Production in Common Bean As Deduced from a Comparative Genetic Mapping

González

Yuste‐Lisbona

Saburido³

et al. 2016

Front. Plant Sci.

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Determinacy growth habit and accelerated flowering traits were selected during or after domestication in common bean. Both processes affect several presumed adaptive traits such as the rate of plant production. There is a close association between flowering initiation and vegetative growth; however, interactions among these two crucial developmental processes and their genetic bases remain unexplored. In this study, with the aim to establish the genetic relationships between these complex processes, a multi-environment quantitative trait locus (QTL) mapping approach was performed in two recombinant inbred line populations derived from inter-gene pool crosses between determinate and indeterminate genotypes. Additive and epistatic QTLs were found to regulate flowering time, vegetative growth, and rate of plant production. Moreover, the pleiotropic patterns of the identified QTLs evidenced that regions controlling time to flowering traits, directly or indirectly, are also involved in the regulation of plant production traits. Further QTL analysis highlighted one QTL, on the lower arm of the linkage group Pv01, harboring the Phvul.001G189200 gene, homologous to the Arabidopsis thaliana TERMINAL FLOWER1 (TFL1) gene, which explained up to 32% of phenotypic variation for time to flowering, 66% for vegetative growth, and 19% for rate of plant production. This finding was consistent with previous results, which have also suggested Phvul.001G189200 (PvTFL1y) as a candidate gene for determinacy locus. The information here reported can also be applied in breeding programs seeking to optimize key agronomic traits, such as time to flowering, plant height and an improved reproductive biomass, pods, and seed size, as well as yield.

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“…Decades of research in model and crop species have revealed genetic pathways that dictate the reproductive transition to flowering and the development of diverse inflorescence forms Tanaka et al 2013;Kyozuka et al 2014;Benlloch et al 2015). Upon perception and integration of environmental and endogenous cues, such as day length and the flowering hormone florigen (Benlloch et al 2007;Shalit et al 2009), meristems gradually mature from a small flat structure into a large domed reproductive inflorescence meristem (IM) (Kwiatkowska 2008).…”

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confidence: 99%

The evolution of inflorescence diversity in the nightshades and heterochrony during meristem maturation

et al. 2016

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One of the most remarkable manifestations of plant evolution is the diversity for floral branching systems. These "inflorescences" arise from stem cell populations in shoot meristems that mature gradually to reproductive states in response to environmental and endogenous signals. The morphology of the shoot meristem maturation process is conserved across distantly related plants, raising the question of how diverse inflorescence architectures arise from seemingly common maturation programs. In tomato and related nightshades (Solanaceae), inflorescences range from solitary flowers to highly branched structures bearing hundreds of flowers. Since reproductive barriers between even closely related Solanaceae have precluded a genetic dissection, we captured and compared meristem maturation transcriptomes from five domesticated and wild species reflecting the evolutionary continuum of inflorescence complexity. We find these divergent species share hundreds of dynamically expressed genes, enriched for transcription factors. Meristem stages are defined by distinct molecular states and point to modified maturation schedules underlying architectural variation. These modified schedules are marked by a peak of transcriptome expression divergence during the reproductive transition, driven by heterochronic shifts of dynamic genes, including transcriptional regulators with known roles in flowering. Thus, evolutionary diversity in Solanaceae inflorescence complexity is determined by subtle modifications of transcriptional programs during a critical transitional window of meristem maturation, which we propose underlies similar cases of plant architectural variation. More broadly, our findings parallel the recently described transcriptome "inverse hourglass" model for animal embryogenesis, suggesting both plant and animal morphological variation is guided by a mid-development period of transcriptome divergence.

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Genetic control of inflorescence architecture in legumes

Cited by 83 publications

References 118 publications

Genetic dissection of plant growth habit in chickpea

Genetic dissection of plant growth habit in chickpea

Major Contribution of Flowering Time and Vegetative Growth to Plant Production in Common Bean As Deduced from a Comparative Genetic Mapping

The evolution of inflorescence diversity in the nightshades and heterochrony during meristem maturation

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