Author

A. Harkess

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Plant Biology· 6 Evolutionary Biology· 4 Biochemistry· 1

Signature Assays, Organisms & Methods

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Organism:plant (other)· 9 Approach:experimental assay· 6 Approach:statistical model· 5 Assay:whole-genome sequencing· 5 Research Focus:cell type annotation· 4 Research Focus:differential expression· 4 Research Focus:gene regulatory network inference· 4 Assay:bulk RNA-seq· 2

Frequent Co-Authors

J. Leebens-Mack· 3 shared S. B. Carey· 2 shared A. A. C. Hooft van Huysduynen· 1 shared A. Andres-Robin· 1 shared A. Bao· 1 shared A. Bewick· 1 shared A. C. Martin· 1 shared A. Forrest· 1 shared

Activity by Year

2020-2024 · peak 3/yr

Co-Author Collaboration Network

10 top collaborators · 11 mutual co-author links

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3 shared papersPlant Biology

J. Leebens-Mack

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11 papers

Recent·Most cited

Parameterizing Pantherinae: de novo mutation rate estimates from Panthera and Neofelis pedigrees

E. E. Armstrong, S. B. Carey, A. Harkess, G. Zenato Lazzari, K. A. Solari, J. E. Maldonado, R. C. Fleischer, N. Aziz, P. Walsh, K.-P. Koepfli, E. Eizirik, D. A. Petrov, M. Campana

The paper estimates de novo mutation rates in Panthera and Neofelis species using pedigrees, finding rates between 0.5 and 1.4e-08 per generation per base pair.

bioRxiv · Apr 6, 2024Evolutionary Biology

RenSeq of Silphium integrifolium Reveals a Biotic Gradient for Disease Resistance

K. G. Keepers, K. Peterson, A. R. Raduski, K. M. Turner, D. van Tassel, K. P. Smith, A. Harkess, J. D. Bever, Y. Brandvain

This study uses RenSeq to analyze R genes in Silphium integrifolium across a rainfall gradient, finding a positive correlation between precipitation and R gene count.

bioRxiv · May 2, 2023 · PreprintEvolutionary Biology

Chromosome-level genome assembly of Euphorbia peplus, a model system for plant latex, reveals that relative lack of Ty3 transposons contributed to its small genome size

A. R. Johnson, Y. Yue, S. B. Carey, S. J. Park, L. H. Kruse, A. Harkess, A. Bao, A. Pasha, N. J. Provart, G. D. J. Moghe, M. Frank

This paper presents a chromosome-level genome assembly of Euphorbia peplus, identifies a gene cluster for ingenol mebutate biosynthesis, and explains its small genome size through restricted Ty3 transposon expansion.

bioRxiv · Oct 13, 2022 · PreprintPlant Biology

Complex scaffold remodeling in plant triterpene biosynthesis

R. De La Pena, H. Hodgson, J. C. T. Liu, M. J. Stephenson, A. C. Martin, C. Owen, A. Harkess, J. Leebens-Mack, L. E. Jimenez, A. Osbourn, E. S. Sattely

The paper identifies 22 enzymes involved in limonoid biosynthesis, enabling the total synthesis of kihadalactone A and azadirone in a heterologous plant.

bioRxiv · Sep 26, 2022Biochemistry

Global Phylogeny of the Brassicaceae Provides Important Insights into Gene Discordance

K. P. Hendriks, C. Kiefer, I. A. Al-Shehbaz, C. D. Bailey, A. A. C. Hooft van Huysduynen, L. Nikolov, L. Nauheimer, A. R. Zuntini, D. A. German, A. Franzke, M. A. Koch, M. A. Lysak, O. Toro-Nunez, B. Ozudogru, V. R. Invernon, , Fore

This paper presents a comprehensive Brassicaceae phylogeny, identifies cytonuclear discordance due to hybridization, and proposes new tribes, providing a tool for biodiversity and plant biology studies.

bioRxiv · Sep 1, 2022Evolutionary Biology

Towards a catalog of pome tree architecture genes: the draft 'd'Anjou' genome (Pyrus communis L.)

H. Zhang, E. K. Wafula, J. Eilers, A. Harkess, P. E. Ralph, P. R. Timilsena, C. dePamphilis, J. Waite, L. A. Honaas

The paper presents a draft genome of P. communis dAnjou and improves the Bartlett genome assembly to curate gene families related to tree architecture in rosaceous species.

bioRxiv · Nov 17, 2021Plant Biology

Automated imaging of duckweed growth and development

K. L. Cox, J. Manchego, B. C. Meyers, K. J. Czymmek, A. Harkess

The paper develops an automated microscopy method to image duckweed growth and shows sucrose enhances growth rate.

bioRxiv · Jul 21, 2021Plant Biology

Inter-chromosomal linkage disequilibrium and linked fitness cost loci associated with selection for herbicide resistance

S. Gupta, A. Harkess, A. Soble, M. V. Etten, J. Leebens-Mack, R. S. Baucom

This study identifies loci and evolutionary forces underlying herbicide resistance in weeds, finding interchromosomal linkage disequilibrium and fitness cost loci associated with resistance.

bioRxiv · Apr 4, 2021Plant Biology

A derived ZW chromosome system in Amborella trichopoda, the sister species to all other extant flowering plants

J. Kafer, A. Bewick, A. Andres-Robin, G. Lapetoule, A. Harkess, J. Caius, B. Fogliani, G. Gateble, P. Ralph, C. W. dePamphilis, F. Picard, C. P. Scutt, J. Leebens-Mack, G. A. Marais

The paper identifies a ZW sex chromosome system in Amborella trichopoda, revealing a 4 Mb sex-determining region on chromosome 9 with recent divergence.

bioRxiv · Dec 21, 2020Plant Biology

Adaptive and maladaptive expression plasticity underlying herbicide resistance in an agricultural weed.

E. Josephs, M. Van Etten, A. Harkess, A. Platts, R. Baucom

The paper examines gene expression plasticity and evolution in herbicide-resistant morning glories, finding that plastic responses are often adaptive and selection increases plasticity.

bioRxiv · Sep 25, 2020Evolutionary Biology

Sex-linked gene expression and the reversion to hermaphroditism in Carica papaya L. (Caricaceae)

T. Chae, A. Harkess, R. C. Moore

The paper investigates sex-linked gene expression in Carica papaya, identifying differentially expressed genes and a candidate gene involved in sexual reversion from male to hermaphroditic phenotypes.

bioRxiv · Jun 25, 2020Plant Biology