Characterization of the <i>F</i> Locus Responsible for Floral Anthocyanin Production in Potato

Laimbeer, F. Parker E.; Bargmann, Bastiaan O. R.; Holt, Sarah H.; Pratt, Trenton; Peterson, Brenda A.; Doulis, Andreas G.; Buell, C. Robin; Veilleux, Richard E.

doi:10.1534/g3.120.401684

Cited by 10 publications

(17 citation statements)

References 48 publications

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“…Secondly, R2-R3 MYB transcription factors showing homology with Petunia AN2 gene (Borevitz2000) regulate anthocyanin biosynthesis in dicotyledonous plants [ 76 – 80 ]. A number of these AN2 homologs regulate the expression of anthocyanin enzymes in tubers and flowers of potato [ 33 , 35 , 37 ], including three nearby genes from chromosome 10 named StAN1 , StAN2 and StFlAN2 . The Myb12 TF detected in this study has not been linked to anthocyanin production in potatoes but it´s orthologs regulate anthocyanin production in other plants like Arabidopsis thaliana [ 81 ], apple [ 82 ], lily [ 83 , 84 ], and grape [ 85 ].…”

Section: Resultsmentioning

confidence: 99%

“…For instance, Liu and colleagues [ 97 ] found that changes in the expression of this gene are involved in anthocyanin biosynthesis under heat stress. Additionally, the upregulation of this gene is associated with a greater accumulation of anthocyanins in potato flowers [ 35 ].…”

Section: Resultsmentioning

confidence: 99%

“…These SNPs were linked to anthocyanin regulatory genes, namely StFlAN2 ( PGSC0003DMG400019217 ) and WRKY 13 ( PGSC0003DMG400010987 ) ( Table 2 ). It was recently discovered that StFlAN2 is the main regulator of floral anthocyanin production in potato [ 35 ], matching the function of its ortholog in petunia ( PhAN2 ). On the other hand, WRKY 13 is orthologous with TRANSPARENT TESTA GLABRA 2 from Arabidopsis and PhPH3 from petunia, which control the transcription of structural genes responsible for anthocyanin biosynthesis as well as ion pumps that determine the pH of vacuoles, where anthocyanins are stored [ 98 ].…”

Section: Resultsmentioning

confidence: 99%

“…These include PAL [ 97 ], 7-O-linked N-acetylglucosamine transferases and Myb transcription factors. In fact, previous studies have shown that this genomic region is very dynamic, with both transposon activity and copy number variation [ 35 ]. This genomic region contains the MYB TF StFlAN2 regulating flower color as well as a close paralog also responsible for segregation of corolla anthocyanin production.…”

Section: Resultsmentioning

confidence: 99%

“…This gene governs the expression of multiple enzymes in the pathway, therefore affecting the level of multiple anthocyanin pigments [ 33 ]. Recently, a number of regulatory genes potentially controlling anthocyanin biosynthetic structural genes have been identified in potato tubers [ 20 , 22 , 34 , 35 ] including three R2R3-MYB encoding genes ( StAN1 , StMYBA1 and StMYB113) [ 20 , 21 , 36 ] two bHLH genes ( StJAF13 and StbHLH1) [ 21 , 37 ] and one WD40 ( StWD40 ) [ 38 ].…”

Section: Introductionmentioning

confidence: 99%

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Pathway-based analysis of anthocyanin diversity in diploid potato

et al. 2021

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Anthocyanin biosynthesis is one of the most studied pathways in plants due to the important ecological role played by these compounds and the potential health benefits of anthocyanin consumption. Given the interest in identifying new genetic factors underlying anthocyanin content we studied a diverse collection of diploid potatoes by combining a genome-wide association study and pathway-based analyses. By using an expanded SNP dataset, we identified candidate genes that had not been associated with anthocyanin variation in potatoes, namely a Myb transcription factor, a Leucoanthocyanidin dioxygenase gene and a vacuolar membrane protein. Importantly, a genomic region in chromosome 10 harbored the SNPs with strongest associations with anthocyanin content in GWAS. Some of these SNPs were associated with multiple anthocyanin compounds and therefore could underline the existence of pleiotropic genes or anthocyanin biosynthetic clusters. We identified multiple anthocyanin homologs in this genomic region, including four transcription factors and five enzymes that could be governing anthocyanin variation. For instance, a SNP linked to the phenylalanine ammonia-lyase gene, encoding the first enzyme in the phenylpropanoid biosynthetic pathway, was associated with all of the five anthocyanins measured. Finally, we combined a pathway analysis and GWAS of other agronomic traits to identify pathways related to anthocyanin biosynthesis in potatoes. We found that methionine metabolism and the production of sugars and hydroxycinnamic acids are genetically correlated to anthocyanin biosynthesis. The results contribute to the understanding of anthocyanins regulation in potatoes and can be used in future breeding programs focused on nutraceutical food.

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Section: Resultsmentioning

confidence: 99%

Section: Resultsmentioning

confidence: 99%

Section: Resultsmentioning

confidence: 99%

Section: Resultsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Pathway-based analysis of anthocyanin diversity in diploid potato

et al. 2021

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StCoExpNet: a global co-expression network analysis facilitates identifying genes underlying agronomic traits in potatoes

Bonthala,

Stich

2024

Plant Cell Rep

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Key message We constructed a gene expression atlas and co-expression network for potatoes and identified several novel genes associated with various agronomic traits. This resource will accelerate potato genetics and genomics research. Abstract Potato (Solanum tuberosum L.) is the world's most crucial non-cereal food crop and ranks third in food production after wheat and rice. Despite the availability of several potato transcriptome datasets at public databases like NCBI SRA, an effort has yet to be put into developing a global transcriptome atlas and a co-expression network for potatoes. The objectives of our study were to construct a global expression atlas for potatoes using publicly available transcriptome datasets, identify housekeeping and tissue-specific genes, construct a global co-expression network and identify co-expression clusters, investigate the transcriptional complexity of genes involved in various essential biological processes related to agronomic traits, and provide a web server (StCoExpNet) to easily access the newly constructed expression atlas and co-expression network to investigate the expression and co-expression of genes of interest. In this study, we used data from 2299 publicly available potato transcriptome samples obtained from 15 different tissues to construct a global transcriptome atlas. We found that roughly 87% of the annotated genes exhibited detectable expression in at least one sample. Among these, we identified 281 genes with consistent and stable expression levels, indicating their role as housekeeping genes. Conversely, 308 genes exhibited marked tissue-specific expression patterns. We exemplarily linked some co-expression clusters to important agronomic traits of potatoes, such as self-incompatibility, anthocyanin biosynthesis, tuberization, and defense responses against multiple pathogens. The dataset compiled here constitutes a new resource (StCoExpNet), which can be accessed at https://stcoexpnet.julius-kuehn.de. This transcriptome atlas and the co-expression network will accelerate potato genetics and genomics research.

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