2024

-Kitony J, Colt C, Abramson B, Hartwick N, Petrus S, Konozy E, Karimi N, Yant L, Michael T Chromosome-level baobab genome illuminates its evolutionary trajectory and environmental adaptation Nature Communications

-Busoms S, da Silva A, Escolà G, Abdilzadeh R, Curran E, Bollmann-Giolai A, Bray S, Wilson M, Poschenrieder C and Yant L Local cryptic diversity in salinity adaptation mechanisms in a wild outcrossing Brassica PNAS

-Bray SM, Hamala T, Zhou M, Busoms S, Fischer S, Desjardins SD, Mandakova T, Moore C, Mathers TC, Cowan L, Monnahan P, Koch J, Wolf EM, Lysak MA, Kolar F, Higgins JD, Koch MA, Yant L Kinetochore and ionomic adaptation to whole-genome duplication in Cochlearia shows evolutionary convergence in three autopolyploids Cell Reports

-Hämälä T, Moore C, Cowan L, Carlile M, Gopaulchan D, Brandrud MK, Birkeland S, Loose M, Kolář F, Koch MA, Yant L Impact of whole-genome duplications on structural variant evolution in Cochlearia Nature Communications

Grewal S, Yang C, Scholefield D, Ashling S, Ghosh S, Swarbreck D, Collins J, Yao E, Sen T, Wilson M, Yant L, King I, King J Chromosome-scale genome assembly of bread wheat’s wild relative Triticum timopheevii Scientific Data

Smith K, Zhou M, Flis P, Jones D, Bishopp A, Yant L The evolution of the duckweed ionome mirrors losses in structural complexity. Annals of Botany

Smith K, Cowan L, Taylor B, McAusland L, Heatley M, Yant L, Murchie E Physiological adaptation to irradiance in duckweeds is species and accession specific and depends on light habitat niche. Journal of Experimental Botany

2023

-Busoms S, Perez-Martin L, Teres J, Huang X, Yant L, Tolra R, Salt D, Poschenrieder C Combined genomics to discover genes associated with tolerance to soil carbonate  Plant, Cell & Environment

-Kolesnikova U, Scott A, Van de Velde J, Burns R, Tikhomirov N, Pfordt U, Clarke A, Yant L, Vekemans X, Laurent S, Novikova P Transition to Self-compatibility Associated With Dominant S-allele in a Diploid Siberian Progenitor of Allotetraploid Arabidopsis kamchatica Revealed by Arabidopsis lyrata Genomes, Molecular Biology and Evolution

-Busoms S, Fischer S, Yant L Chasing the Mechanisms of Ecologically Adaptive Salinity Tolerance, Plant Communications.

-Ware A, Jones D, Flis P, Smith K, Wilson M, Kümpers B, Yant L, Atkinson J, Wells D, Bhosale R, Bishopp A Loss of ancestral function in duckweed roots is accompanied by progressive anatomical reduction and a re-distribution of nutrient transporters, Current Biology

-Edwards A, Njaci I, Sarkar A, Jiang Z, Kaithakottil G, Moore C, Cheema J, Stevenson C, Rejzek M, Novak P, Vigouroux M, Vickers M, Wouters R, Paajanen P, Steurnagel B, Moore J, Higgins J, Swarbreck D, Martens D, Kim C, Weng J, Mundree S, Kilian B, Kumar S, Loose M, Yant L, Macas K, Wang T, Martin C, Emmrich P The grass pea (Lathyrus sativus L.) genome reveals novel enzyme activity involved in the biosynthesis of β-L-ODAP, the cause of neurolathyrism, Nature Communications.

2022

-Chen X, Zhou M, Yant L, Huang C Circular RNA in disease: Basic properties and biomedical relevance. Wiley Interdisciplinary Reviews: RNA.

-EA Bell, CL Butler, C Oliveira, S Marburger, L Yant, MI Taylor Transposable element annotation in non‐model species: The benefits of species-specific repeat libraries using semi-automated EDTA and DeepTE de novo pipelines. Molecular Ecology Resources

2021

-Wolf EM, Gaquarel E, Scharmann M, Yant L, Koch M Evolutionary footprints of a cold relic in a rapidly warming world. eLife

-Konečná V, Bray S, Vlček J, Bohutínská M, Požárová D, Choudhury R, Bollmann A, Flis P, Salt D, Parisod C, *Yant L, *Kolář F Serpentine adaptation in autopolyploid Arabidopsis arenosa is dominated by repeated recruitment of shared alleles. Nature Communications

-Busoms S, Terés J, Yant L, Poschenrieder C, Salt DE Adaptation to coastal soils through pleiotropic boosting of ion and stress hormone levels in wild Arabidopsis thaliana. New Phytologist

-Su W, Jing Y, Lin S, Yue Z, Yang X, Xu J, Wu J, Zhang Z, Xia R, Zhu J, An N, Chen H, Hong Y, Yuan Y, Long T, Zhang L, Jiang Y, Liu Z, Zhang H, Gao Y, Liu Y, Lin H, Wang H, Yant L, Lin S, and Liu Z Polyploidy underlies co-option and diversification of biosynthetic triterpene pathways in the apple tribe PNAS

-Bohutínská M, Alston M, Monnahan P, Bray S, Paajanen P, Kolář F, and *Yant L Novelty and convergence in adaptation to whole genome duplication Molecular Biology and Evolution

-Vallejo-Marín M, Friedman J, Twyford AD, Lepais O, Ickert-Bond SM, Streisfeld MA, Yant L, van Kleunen M, Rotter MC, Puzey JR Population genomic and historical analysis reveals a global invasion by bridgehead processes in Mimulus guttatus Communications Biology

-Takou M, Hämälä T, Steige K, Koch E, Dittberner H, Yant L, Genete M, Sunyaev S, Vekemans X, Savolainen O, and de Meux J Maintenance of adaptive dynamics in a bottlenecked range edge population that retained outcrossing Molecular Biology and Evolution

-Bohutínská M, Handrick V, Yant L, Schmickl R, Kolář F, Bomblies K, Paajanen P De-novo mutation and rapid protein (co-)evolution during meiotic adaptation in Arabidopsis arenosa Molecular Biology and Evolution

2020

-Schmickl R and Yant L Adaptive introgression: how polyploidy transforms gene flow landscapes New Phytologist Tansley Insight

-Liu Z, Cheema J, Vigouroux M, Hill L, Reed J, Paajanen P, Yant L, and Anne Osbourn Genetic basis for assembly and diversification of biosynthetic gene clusters in plants Nature Communications

-Seear, P, France, M, Gregory, C, Heavens, D, Schmickl, R, *Yant L, and *Higgins, J D A novel allele of ASY3 is associated with greater meiotic stability in autotetraploid Arabidopsis lyrata PLOS Genetics (*co-corresponding)

-Novikova P, Brennan IG, Booker W, Mahony M, Doughty P, Lemmon AR, Lemmon EM, Yant L, Van de Peer Y, Keogh JS, Donnellan SC Whole genome duplication potentiates inter-specific hybridisation and niche shifts in Australian burrowing frogs PLOS Genetics

-Konečná V, *Yant L, *Kolář F The evolutionary genomics of serpentine adaptation Frontiers in Plant Science, (*co-corresponding)

-Bell EA, Cable J, Oliveira C, Richardson DS, Yant L, Taylor MI Help or hinderance? Investigating the evolutionary impact of whole genome duplication on immunogenetic diversity and parasite load in Corydoras catfishes Ecology and Evolution

2019

-Monnahan P, Kolář F, Baduel P, Sailer C, Koch J, Horvath R, Laenen B, Schmickl R, Paajanen P, Fuxová G, Holcová M, Arnold B, Weismann C, Marhold K, Slotte T, Bomblies K and Yant L Pervasive population genomic consequences of genome duplication in Arabidopsis arenosa Nature Ecology & Evolution

-Marburger S, Monnahan P, Seear P, Martin S, Koch J, Paajanen P, Bohutínská M, Higgins J, Schmickl R, and Yant L Interspecific introgression mediates adaptation to whole genome duplication. Nature Communications

-Zhou M, Zheng S, Liu R, Lu J, Lu L, Zhang C, Zhang L, Yant L and Yu Wu The genome-wide impact of cadmium on microRNA and mRNA expression in contrasting Cd responsive wheat genotypes BMC Genomics

-Zhou M, Zheng S, Liu R, Lu J, Lu L, Zhang C, Liu Z, Luo C, Zhang L, Yant L and Yu Wu Genome-wide identification, phylogenetic and expression analysis of the heat shock transcription factor family in bread wheat (Triticum aestivum L.) BMC Genomics

-Preite V, Sailer C, Syllwasschy L, Bray S, Krämer U, Yant L Convergent evolution in Arabidopsis halleri and Arabidopsis arenosa on calamine metalliferous soils. Phil Trans Roy. Soc. B

2018

-Busoms S, Paajanen P, Marburger S, Bray S, Huang X, Poschenrieder C, *Yant L, and *Salt D Ecological and population genomics reveals fluctuating selection on migrant adaptive sodium transporter alleles in coastal Arabidopsis thaliana. PNAS (*co-corresponding)

-Collani S, Neumann M, Yant L, Schmid M Effects of FLOWERING LOCUS T on FD during the transition to flowering at the shoot apical meristem of Arabidopsis thaliana Plant Physiology

-Baduel P, Bray S, Vallejo-Marin M, Kolář F, and Yant L The ‘Polyploid Hop’: shifting challenges and opportunities over the evolutionary lifespan of genome duplications. Frontiers in Ecology and Evolution

2017

-Schmickl R, Marburger S, Bray S, Yant L Hybrids and horizontal transfer: introgression allows adaptive allele discovery Journal of Experimental Botany

-Yant L* and Bomblies K* Genomic studies of adaptive evolution in outcrossing Arabidopsis species. Current Opinion in Plant Biology (*co-corresponding)

2016

-Arnold B, DaCosta J, Lahner B, Weisman C, Hollister JD, Salt DE, Bomblies K, Yant L Borrowed genes and convergence: serpentine adaptation in the face of inter- and intraspecific gene flow PNAS

-Pose D and Yant L CHIP-seq in plants. Plant Signal Transduction, Methods Mol Biol. 1363:25-35. doi.org/10.1007/978-1-4939-3115-6_3.

2015

-Yant L and Bomblies K* Genome management and mismanagement – cell-level problems and opportunities of whole genome duplication. Genes and Development (*co-corresponding)

-Bomblies K, Higgins J, Yant L Meiosis Evolves: Adaptation to external and internal environments. Tansley Review, New Phytologist.

-Yant L When two is a crowd: mitochondrial genome merger and its aftermath. New Phytologist

-Yant L, Collani S, Puzey J, Levy C, EM Kramer Molecular basis for three-dimensional elaboration of the Aquilegia petal spur. Proc. Roy. Soc. B

2014

-Sharma B, Yant L, Hodges S, Kramer E Understanding the development and evolution of novel floral form in Aquilegia. Current Opinion in Plant Biology

2013

-Yant L, Hollister JD, Wright K, Arnold BJ, Higgins JD, Franklin FCH, Bomblies K Meiotic adaptation to genome duplication in Arabidopsis arenosa. Current Biology

(An Editors’ Pick in Science and featured in a Dispatch in same issue of Current Biology)

-Posé D, Verhage L, Ott F, Yant L, Mathieu J, Angenent GC, Immink RGH, Schmid M Temperature-dependent regulation of flowering by antagonistic FLM variants. Nature

(Featured in a Perspective in Science)

2012

-Dinh TT, Girke T, Liu X, Yant L, Schmid M, Chen X The floral homeotic protein APETALA2 recognizes and acts through an AT-rich sequence element. Development

-Yant L Genome-wide mapping of transcription factor binding reveals developmental process integration and a fresh look at evolutionary dynamics. American Journal of Botany

2011

-Salomé PA, Bomblies K, Fitz J, Laitinen R, Warthmann N, Yant L, Weigel D The recombination landscape in Arabidopsis thaliana F2 populations. Heredity.

-Pose D*, Yant L*, Schmid M The end of innocence: flowering networks explode in complexity. Current Opinion in Plant Biology *equal contribution

-Moyroud E, Gomez-Minguet E, Ott F, Yant L, Pose-Padilla D, Blanchet S, Monniaux M, Bastien O, Thévenon E, Weigel D, Schmid M, Parcy F Prediction of regulatory interactions from genome sequences using a biophysical model for the Arabidopsis LEAFY transcription factor. Plant Cell (April 2011 Cover)

-Salomé PA, Bomblies K, Laitinen R, Yant L, Mott R, Weigel D Genetic architecture of flowering time variation in Arabidopsis thaliana. Genetics (June 2011 Cover)

2010

-Yant L, Mathieu J, Dinh TT, Ott F, Wollman H, Chen X, Schmid M Orchestration of the floral transition and floral development by the bifunctional transcription factor APETALA2 Plant Cell

-Bomblies K, Yant L, Laitinen R, Kim, ST, Weigel D Local-scale patterns of genetic variability, outcrossing, and spatial structure in natural stands of Arabidopsis thaliana PLoS Genetics

2009

-Yant L, Mathieu J, Schmid M Just say “no”: floral repressors help Arabidopsis bide the time Current Opinion in Plant Biology.

-Mathieu J, Yant LJ, Mürdter F, Küttner F, Schmid M Repression of flowering by the miR172 target SMZ PLoS Biology

2008 and before

-Maness NJ, Yant LJ, Chung C, Friedrich TC, Piaskowski SM, Furlott J, May GE, Soma T, Leon EJ, Wilson NA, Piontkivska H, Hughes AL, Sidney J, Sette A, Watkins DI (2008) Comprehensive immunological evaluation of elite controller and progressor, Mamu-B*17-positive SIV-infected rhesus macaques reveals surprisingly few differences. Journal of Virology 82, 5245.

-Friedrich TC, Valentine LE, Yant LJ, Rakasz EG, Piaskowski SM, Furlott JR, Weisgrau KL, Burwitz B, May GE, León EJ, Soma T, Napoe G, Capuano III SV, Wilson N, Watkins DI (2007) Subdominant CD8+ T-cell responses are involved in durable control of AIDS virus replication. Journal of Virology 81, 3465.

-Wojcechowskyj JA, Yant LJ, Wiseman RW, O’Connor DH (2007) Control of SIVmac239 is not predicted by inheritance of Mamu-B*17-containing haplotypes. Journal of Virology 81, 406.

-Wilson NA, Reed J, Napoe GS, Piaskowski S, Szymanski A, Furlott J, Gonzalez EJ, Yant LJ, Maness NJ, May GE, Soma T, Reynolds MR, Rakasz E, Rudersdorf R, McDermott AB, O'Connor DH, Friedrich TC, Allison DB, Patki A, Picker LJ, Burton DR, Lin J, Huang L, Patel D, Heindecker G, Fan J, Citron M, Horton M, Wang F, Liang X, Shiver JW, Casimiro DR, Watkins DI (2006) Vaccine-induced cellular immune responses reduce plasma viral concentrations after repeated low-dose challenge with pathogenic simian immunodeficiency virus SIVmac239. Journal of Virology 80, 5875.

-Yant LJ, Friedrich TC, Johnson RC, May G, Maness NJ, Enz AM, Lifson J, O’Connor DH, Carrington M, Watkins DI (2006) The high frequency MHC class I allele Mamu-B*17 is associated with control of SIVmac239 replication. Journal of Virology 80, 5074.

-Loffredo JT, Rakasz EG, Giraldo JP, Spencer SP, Grafton KK, Martin SR, Napoe G, Yant LJ, Wilson NA, Watkins DI (2005) Tat(28-35)SL8-specific CD8+ T lymphocytes are more effective than Gag(181-189)CM9-specific CD8+ T lymphocytes at suppressing simian immunodeficiency virus replication in a functional in vitro assay. Journal of Virology 79, 14986.

-O'Connor DH, McDermott AB, Krebs KC, Dodds EJ, Miller JE, Gonzalez EJ, Jacoby TJ, Yant LJ, Piontkivska H, Pantophlet R, Burton DR, Rehrauer WM, Wilson N, Hughes AL, Watkins DI (2004) A dominant role for CD8+-T-lymphocyte selection in simian immunodeficiency virus sequence variation. Journal of Virology 78, 14012.

-Friedrich TC, McDermott AB, Reynolds MR, Piaskowski S, Fuenger S, de Souza IP, Rudersdorf R, Cullen C, Yant LJ, Vojnov L, Stephany J, Martin S, O'Connor DH, Wilson N, Watkins DI (2004) Consequences of cytotoxic T-lymphocyte escape: common escape mutations in simian immunodeficiency virus are poorly recognized in naive hosts. Journal of Virology 78, 10064.

-McDermott AB, Mitchen J, Piaskowski S, De Souza I, Yant LJ, Stephany J, Furlott J, Watkins DI (2004) Repeated low dose mucosal SIVmac239 challenge results in the same viral and immunological kinetics as high dose challenge; a model for the evaluation of vaccine efficacy in non-human primates. Journal of Virology 78, 3140.

-Friedrich TC, Dodds E, Yant LJ, Rudersdorf R, Cullen C, Evans ET, Desrosiers RC, Mothé BR, Sidney J, Sette A, Kunstman K, Wolinsky S, Piatak M, Lifson J, Wilson N, O’Connor DH, Watkins DI (2004) Reversion of cytotoxic T-lymphocyte (CTL) escape variant immunodeficiency viruses in vivo. Nature Medicine 10, 275.

-Friedrich TC, Frye CA, Yant LJ, O’Connor DH, Kriewaldt N, Benson M, Dodds EJ, Cullen C, Rudersdorf R, Hughes AL, Wilson N, Watkins DI (2004) Extra-epitopic compensatory substitutions restore fitness to simian immunodeficiency virus variants that escape from an immunodominant cytotoxic T-lymphocyte response. Journal of Virology 78, 2581.

-Yant LJ, Ran Q, Rao L, Van Remmen H, Shibatani T, Belter JG, Motta L, Richardson A, Prolla TA (2003) The selenoprotein GPX4 is essential for mouse development and protects from radiation and oxidative damage insults. Free Radical Biology and Medicine 34, 496.

Preprints

-Repeated adaptation to whole genome duplication in wild outcrossing Arabidopsis species is mediated by mosaic adaptive haplotypes (2023) Bohutínská M, Petříková E, Booker T, Cobo C, Vlček J, Šrámková G, Poštulková A, Hojka J, Marhold K, Yant L*, Kolář F*, Schmickl R* bioRxiv (*=equal contribution) (bioRxiv)

-Poschenrieder C,Pérez-Martín L, Busoms D, Gelabert J, Huang X, Yant L, Tolrà R, Salt DE (2023) Combined genomics revealed candidate genes associated with tolerance to soil carbonate in Arabidopsis thaliana (Authorea)

-Kolesnikova U, Scott A, Van de Velde J, Burns R, Tikhomirov N, Pfordt U, Clarke A, Yant L, Vekemans X, Laurent S, Novikova P (2022) Genome of selfing Siberian Arabidopsis lyrata explains establishment of allopolyploid Arabidopsis kamchatica, (bioRxiv)

-Ware A, Jones DH, Flis P, Smith K, Kümpers B, Yant L, Atkinson JA, Wells D and Bishopp A, Duckweed roots are dispensable and are on a trajectory toward vestigiality (bioRxiv)

-Bray S, Wolf E, Zhou M, Busoms S, Bohutínská M, Paajanen P, Monnahan P, Koch J, Fischer S, Koch MA, and Yant L, Convergence and novelty in adaptation to whole genome duplication in three independent polyploids (bioRxiv)