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Page 1
Selection on Accessible Chromatin Regions in Capsella grandiflora.
Horvath R, Josephs EB, Pesquet E, Stinchcombe JR, Wright SI, Scofield D, Slotte T. Horvath R, et al. Mol Biol Evol. 2021 Dec 9;38(12):5563-5575. doi: 10.1093/molbev/msab270. Mol Biol Evol. 2021. PMID: 34498072 Free PMC article.
Here, we applied this approach to identify and estimate selection on ACRs in Capsella grandiflora, a crucifer species ideal for population genomic quantification of selection due to its favorable population demography. ...
Here, we applied this approach to identify and estimate selection on ACRs in Capsella grandiflora, a crucifer species ideal fo …
Contrasting demographic history and population structure in Capsella rubella and Capsella grandiflora, two closely related species with different mating systems.
St Onge KR, Källman T, Slotte T, Lascoux M, Palmé AE. St Onge KR, et al. Mol Ecol. 2011 Aug;20(16):3306-20. doi: 10.1111/j.1365-294X.2011.05189.x. Epub 2011 Jul 21. Mol Ecol. 2011. PMID: 21777317
Here, we use multilocus sequence data to investigate how these factors impact two closely related Brassicaceae species: the selfing Capsella rubella and the outcrossing C. grandiflora. To do this, we have sequenced 16 loci in approximately 70 individuals from 7 popu …
Here, we use multilocus sequence data to investigate how these factors impact two closely related Brassicaceae species: the selfing Capse …
Hybrid seed incompatibility in Capsella is connected to chromatin condensation defects in the endosperm.
Dziasek K, Simon L, Lafon-Placette C, Laenen B, Wärdig C, Santos-González J, Slotte T, Köhler C. Dziasek K, et al. PLoS Genet. 2021 Feb 11;17(2):e1009370. doi: 10.1371/journal.pgen.1009370. eCollection 2021 Feb. PLoS Genet. 2021. PMID: 33571184 Free PMC article.
In this study, we investigated the molecular events accompanying seed failure in hybrids of the closely related species pair Capsella rubella and C. grandiflora. Mapping of QTL for the underlying cause of hybrid incompatibility in Capsella identified three QT …
In this study, we investigated the molecular events accompanying seed failure in hybrids of the closely related species pair Capsella …
Transposable Elements Are Important Contributors to Standing Variation in Gene Expression in Capsella Grandiflora.
Uzunović J, Josephs EB, Stinchcombe JR, Wright SI. Uzunović J, et al. Mol Biol Evol. 2019 Aug 1;36(8):1734-1745. doi: 10.1093/molbev/msz098. Mol Biol Evol. 2019. PMID: 31028401
We characterized TE insertion polymorphisms and their association with gene expression in 124 whole-genome sequences from a single population of Capsella grandiflora, and contrasted this with the effects of single nucleotide polymorphisms (SNPs). ...
We characterized TE insertion polymorphisms and their association with gene expression in 124 whole-genome sequences from a single populatio …
Recent speciation of Capsella rubella from Capsella grandiflora, associated with loss of self-incompatibility and an extreme bottleneck.
Guo YL, Bechsgaard JS, Slotte T, Neuffer B, Lascoux M, Weigel D, Schierup MH. Guo YL, et al. Proc Natl Acad Sci U S A. 2009 Mar 31;106(13):5246-51. doi: 10.1073/pnas.0808012106. Epub 2009 Mar 23. Proc Natl Acad Sci U S A. 2009. PMID: 19307580 Free PMC article.
The loss of S.I. has occurred many times independently, because it provides short-term advantages in situations where pollinators or mates are rare. The genus Capsella, which is closely related to Arabidopsis, contains a pair of closely related diploid species, the self-in …
The loss of S.I. has occurred many times independently, because it provides short-term advantages in situations where pollinators or mates a …
Genomic analysis reveals major determinants of cis-regulatory variation in Capsella grandiflora.
Steige KA, Laenen B, Reimegård J, Scofield DG, Slotte T. Steige KA, et al. Proc Natl Acad Sci U S A. 2017 Jan 31;114(5):1087-1092. doi: 10.1073/pnas.1612561114. Epub 2017 Jan 17. Proc Natl Acad Sci U S A. 2017. PMID: 28096395 Free PMC article.
To address these questions, we studied the prevalence, genomic determinants, and selective forces shaping cis-regulatory variation in the outcrossing plant Capsella grandiflora We first identified a set of 1,010 genes with common cis-regulatory variation using analy …
To address these questions, we studied the prevalence, genomic determinants, and selective forces shaping cis-regulatory variation in the ou …
KIPEs3: Automatic annotation of biosynthesis pathways.
Rempel A, Choudhary N, Pucker B. Rempel A, et al. PLoS One. 2023 Nov 16;18(11):e0294342. doi: 10.1371/journal.pone.0294342. eCollection 2023. PLoS One. 2023. PMID: 37972102 Free PMC article.
Functionality of KIPEs3 is demonstrated through the analysis of the flavonoid biosynthesis in Arabidopsis thaliana Nd-1, Capsella grandiflora, and Dioscorea dumetorum. We demonstrate the applicability of KIPEs to other pathways by adding the carotenoid biosynthesis …
Functionality of KIPEs3 is demonstrated through the analysis of the flavonoid biosynthesis in Arabidopsis thaliana Nd-1, Capsella …
On the origin of the widespread self-compatible allotetraploid Capsella bursa-pastoris (Brassicaceae).
Bachmann JA, Tedder A, Fracassetti M, Steige KA, Lafon-Placette C, Köhler C, Slotte T. Bachmann JA, et al. Heredity (Edinb). 2021 Jul;127(1):124-134. doi: 10.1038/s41437-021-00434-9. Epub 2021 Apr 19. Heredity (Edinb). 2021. PMID: 33875831 Free PMC article.
Here, we investigate whether the molecular makeup of the Brassicaceae self-incompatibility (SI) system, and specifically dominance relationships among S-haplotypes mediated by small RNAs, could facilitate loss of SI in allopolyploid crucifers. We focus on the allotetraploid speci …
Here, we investigate whether the molecular makeup of the Brassicaceae self-incompatibility (SI) system, and specifically dominance relations …
Transposable elements drive rapid phenotypic variation in Capsella rubella.
Niu XM, Xu YC, Li ZW, Bian YT, Hou XH, Chen JF, Zou YP, Jiang J, Wu Q, Ge S, Balasubramanian S, Guo YL. Niu XM, et al. Proc Natl Acad Sci U S A. 2019 Apr 2;116(14):6908-6913. doi: 10.1073/pnas.1811498116. Epub 2019 Mar 15. Proc Natl Acad Sci U S A. 2019. PMID: 30877258 Free PMC article.
How such phenotypic variation is achieved rapidly, despite limited genetic variation in species that experience a genetic bottleneck is unknown. Capsella rubella, an annual and inbreeding forb (Brassicaceae), is a great system for studying this basic question. ...TEs are ( …
How such phenotypic variation is achieved rapidly, despite limited genetic variation in species that experience a genetic bottleneck is unkn …
The Relationship between Selection, Network Connectivity, and Regulatory Variation within a Population of Capsella grandiflora.
Josephs EB, Wright SI, Stinchcombe JR, Schoen DJ. Josephs EB, et al. Genome Biol Evol. 2017 Apr 1;9(4):1099-1109. doi: 10.1093/gbe/evx068. Genome Biol Evol. 2017. PMID: 28402527 Free PMC article.
We used coexpression networks to measure connectivity between genes and investigated the relationship between gene connectivity and selection in a natural population of the plant Capsella grandiflora. We observed that network connectivity was negatively correlated w …
We used coexpression networks to measure connectivity between genes and investigated the relationship between gene connectivity and selectio …
62 results