Jana Biová

SorghumHub: featuring the next phase for the KBCommons web portal with new molecular biology features

Nathan Grant, Yen On Chan, A. S. M. Ashique Mahmood, Jana Biová et autres

BACKGROUND: Genomic resources for underutilized crops like sorghum [Sorghum bicolor (L.) Moench] often lag behind major staples, hindering efforts to link genetic diversity to agronomic traits. Improvements in genomic sequencing and bioinformatics have advanced crop genomics, yet species-specific challenges persist in the …

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Time dynamics models for oxidative stress markers in honey bees (Apis mellifera) following paraquat-induced stress

Jana Biová, Dalibor Kodrı́k, Martina Janků, Silvie Dostálková et autres

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Identifying Rare Alleles Affecting Seed Coat and Hilum Color in Soybean ( Glycine max ) Using Applied Genomics

Ivana Kaňovská, Jana Biová, Jana Slivková, Kristin Bilyeu et autres

ABSTRACT Breeding programs are often constrained by the genetic diversity of the parental lines, even though these lines can be a rare source of unique alleles not found elsewhere. Therefore, identifying these rare alleles is crucial for keeping them in the breeding …

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New perspectives of post-GWAS analyses: From markers to causal genes for more precise crop breeding

Ivana Kaňovská, Jana Biová, Mária Škrabišová

Crop breeding advancement is hindered by the imperfection of methods to reveal genes underlying key traits. Genome-wide Association Study (GWAS) is one such method, identifying genomic regions linked to phenotypes. Post-GWAS analyses predict candidate genes and assist in causative mutation (CM) recognition. …

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Natural and artificial selection of multiple alleles revealed through genomic analyses

Jana Biová, Ivana Kaňovská, Yen On Chan, Manish Sridhar Immadi et autres

Genome-to-phenome research in agriculture aims to improve crops through in silico predictions. Genome-wide association study (GWAS) is potent in identifying genomic loci that underlie important traits. As a statistical method, increasing the sample quantity, data quality, or diversity of the GWAS dataset …

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Cataloging SCN resistance loci in North American public soybean breeding programs

A. S. M. Ashique Mahmood, Kristin Bilyeu, Mária Škrabišová, Jana Biová et autres

Soybean cyst nematode (SCN) is a destructive pathogen of soybeans responsible for annual yield loss exceeding $1.5 billion in the United States. Here, we conducted a series of genome-wide association studies (GWASs) to understand the genetic landscape of SCN resistance in the …

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Genomic Variations Explorer (GenVarX): a toolset for annotating promoter and CNV regions using genotypic and phenotypic differences

Yen On Chan, Jana Biová, A. S. M. Ashique Mahmood, Nicholas Dietz et autres

The rapid growth of sequencing technology and its increasing popularity in biology-related research over the years has made whole genome re-sequencing (WGRS) data become widely available. A large amount of WGRS data can unlock the knowledge gap between genomics and phenomics through …

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AccuCalc: A Python Package for Accuracy Calculation in GWAS

Jana Biová, Nicholas Dietz, Yen On Chan, Trupti Joshi et autres

The genome-wide association study (GWAS) is a popular genomic approach that identifies genomic regions associated with a phenotype and, thus, aims to discover causative mutations (CM) in the genes underlying the phenotype. However, GWAS discoveries are limited by many factors and typically …

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A novel Synthetic phenotype association study approach reveals the landscape of association for genomic variants and phenotypes

Mária Škrabišová, Nicholas Dietz, Shuai Zeng, Yen On Chan et autres

INTRODUCTION: Genome-Wide Association Studies (GWAS) identify tagging variants in the genome that are statistically associated with the phenotype because of their linkage disequilibrium (LD) relationship with the causative mutation (CM). When both low-density genotyped accession panels with phenotypes and resequenced data accession …

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Corrigendum: American Foulbrood in the Czech Republic: ERIC II Genotype of Paenibacillus Larvae Is Prevalent

Jana Biová, Jaroslav Bzdil, Silvie Dostálková, Marek Petřivalský et autres

In the published article, there was an error in affiliation 2, which was incorrectly affiliated to Jiří Danihlík. Instead of “affiliation Nr. 2”, it should be “affiliation Nr. 1 to Jiří Danihlík”. The authors apologize for this error and state that this …

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American Foulbrood in the Czech Republic: ERIC II Genotype of Paenibacillus Larvae Is Prevalent

Jana Biová, Jaroslav Bzdil, Silvie Dostálková, Marek Petřivalský et autres

American foulbrood (AFB) is a dangerous disease of honeybees (Apis mellifera) caused by the spore-forming bacterium Paenibacillus larvae. According to the ERIC (enterobacterial repetitive intergenic consensus) classification, five genotypes are distinguished, i.e., I, II, III, IV, and V, which differ in their …

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Melissococcus plutonius Can Be Effectively and Economically Detected Using Hive Debris and Conventional PCR

Jana Biová, Jean‐Daniel Charrière, Silvie Dostálková, Mária Škrabišová et autres

European foulbrood (EFB) is an infectious disease of honey bees caused by the bacterium Melissococcus plutonius. A method for DNA isolation and conventional PCR diagnosis was developed using hive debris, which was non-invasively collected on paper sheets placed on the bottom boards …

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