Boas Pucker

The paper reports genome sequences of two Aquilegia vulgaris plants with different flower colors and identifies structural variants and candidate genes involved in anthocyanin biosynthesis.

This study identifies the roles of BGLU1, BGLU3, and BGLU4 in glycosylating already glycosylated flavonoids in Arabidopsis thaliana using reverse genetics and metabolic fingerprinting.

The paper sequences two T. cacao genomes to identify structural variants linked to flavonoid biosynthesis variation.

The paper presents the genome sequence of Tropaeolum majus and identifies genes involved in flavonoid biosynthesis, including those required for flavonol glycoside production.

This study identifies conserved amino acid residues and gene expression patterns that determine substrate preferences of FLS and DFR, showing gene expression exclusivity and evolutionary divergence in angiosperms.

The paper compares anthocyanin pigmentation differences across plant species, identifies genetic factors, and highlights the role of MYB genes in regulating pigmentation.

The paper identifies genetic and transcriptional factors responsible for flower color change in Victoria cruziana using genome and RNA-seq analysis.

The paper investigates how repetitive DNA sequences contribute to chromosomal differentiation and speciation in sugar beet and wild beets, identifying repeat emergence and loss patterns across gene pools.

The paper introduces a tool for automatically annotating bHLH transcription factors in plants using phylogenetic analysis and motif screening.

The paper identifies a genomic region conferring nematode tolerance in sugar beet using genomic and transcriptomic analyses.

KIPEs3 automatically annotates biosynthesis pathways, demonstrating its application to flavonoid and carotenoid pathways in multiple plant species.

This study analyzes the genome and transcriptome of the fungal endophyte Alternaria burnsii NCIM 1409 to understand camptothecin biosynthesis and its defense mechanisms.

This study uses nanopore sequencing to assemble and analyze the plastome of Ceratophyllum submersum, confirming its phylogenetic placement within angiosperms.

The paper presents the first nuclear and mitochondrial genome sequences of Ranunculus, along with plastome evolution, using efficient assembly strategies for non-model plants.

The paper constructs a pangenome of cultivated beet and wild relatives to identify genomic regions with beneficial traits and resolve the parental relationships of a tetraploid wild beet.

The paper identifies annotation artifacts in CHS gene models of four plant species, showing they result from artificial fusions in the annotation process.

This study shows overexpression of PtDXR and PtHMGR in poplars alters gene expression and isoprenoid levels via MEP and MVA pathways.

This study identifies genomic regions associated with seed quality traits in Brassica napus using mapping-by-sequencing, revealing new intervals and potential causal genes for seed glucosinolate, protein, and oil content.

The paper sequences and assembles complete plastome genomes from 18 beet species to resolve their phylogenetic relationships with high resolution.

The paper introduces QUOD, a method to quantify gene dispensability across genomes, validated using Arabidopsis thaliana data, showing dispensable genes are associated with defense and antimicrobial functions.

This study evaluates 50 variant calling pipelines on Arabidopsis thaliana datasets, finding BWA-MEM and Novoalign as top mappers and GATK as best variant caller.

The paper assembles and annotates the genome of Trifoliate yam (Dioscorea dumetorum) using long-read sequencing, achieving high contiguity and predicting gene models.

The paper develops a genome assembly for the grapevine rootstock 'Börner' and uses it to identify markers for mapping a resistance locus against downy mildew.

The paper investigates non-canonical splice site combinations across animal, fungal, and plant genomes, identifying differences such as increased CT-AC frequency in fungi and GA-AG in specific species.

The paper reports genome assemblies of three Caryophyllales species to enhance molecular studies of their genetic diversity and pigment-related genes.

The paper compares the genome of Musa acuminata Dwarf Cavendish to the Pahang reference genome, identifying a unique large duplication on chromosome 2 and determining its triploid ploidy.

The paper reports genome sequencing and analysis of an Arabidopsis thaliana suspension cell culture line, revealing genome size reduction and differences in sequence variants compared to the reference.

The paper presents a chromosome-arm level assembly of the Arabidopsis thaliana Nd-1 genome, revealing genomic rearrangements and gene set differences compared to the Col-0 reference.

The paper identifies conserved amino acid residues in prolidase across species and links them to functional importance and pathogenic potential in human disease.