L. Honaas

发表

Genome Sequence of Striga asiatica Provides Insight into the Evolution of Plant Parasitism

T. Demura, P. McCourt, C. dePamphilis, 2019, Current Biology.

A practical examination of RNA isolation methods for European pear (Pyrus communis)

L. Honaas, Elena Kahn, 2017, BMC Research Notes.

Selecting Superior De Novo Transcriptome Assemblies: Lessons Learned by Leveraging the Best Plant Genome

Naomi S. Altman, J. Leebens-Mack, N. Altman, 2016, PloS one.

Microsoft Word-Naumann_Revision2_Main_Figs.docx

Wanke, Sarah T. Wagner, C. dePamphilis, 2015 .

AtCAT6, a sink-tissue-localized transporter for essential amino acids in Arabidopsis.

D. Schachtman, U. Hammes, E. Nielsen, 2006, The Plant journal : for cell and molecular biology.

ESTs from the basidiomycete Schizophyllum commune grown on nitrogen-replete and nitrogen-limited media.

C. T. Hittinger, A. Gathman, W. Lilly, 2003, Fungal genetics and biology : FG & B.

GEMmaker: process massive RNA-seq datasets on heterogeneous computational infrastructure

Benjamin T. Shealy, Melissa C. Smith, F. Feltus, 2022, BMC Bioinform..

A phased, chromosome-scale genome of ‘Honeycrisp’ apple (Malus domestica)

A. Harkess, Sarah B. Carey, Awais Khan, 2022, bioRxiv.

Evolution of a horizontally acquired legume gene, albumin 1, in the parasitic plant Phelipanche aegyptiaca and related species

C. dePamphilis, Yuannian Jiao, J. Yoder, 2013, BMC Evolutionary Biology.

Building a foundation for gene family analysis in Rosaceae genomes with a novel workflow: A case study in Pyrus architecture genes

C. dePamphilis, E. Wafula, A. Harkess, 2022, Frontiers in Plant Science.

PlantTribes2: Tools for comparative gene family analysis in plant genomics

J. Leebens-Mack, C. dePamphilis, G. V. Kuster, 2022, bioRxiv.

Temporal Dynamics of the Soil Metabolome and Microbiome During Simulated Anaerobic Soil Disinfestation

M. Mazzola, D. Rudell, L. Honaas, 2019, Front. Microbiol..

Co-expression networks provide insights into molecular mechanisms of postharvest temperature modulation of apple fruit to reduce superficial scald

C. dePamphilis, S. Ficklin, D. Rudell, 2019, Postharvest Biology and Technology.

Transcriptomics of Differential Ripening in ‘d’Anjou’ Pear (Pyrus communis L.)

C. dePamphilis, S. Ficklin, D. Rudell, 2021, Frontiers in Plant Science.

Comparative Transcriptome Analyses Reveal Core Parasitism Genes and Suggest Gene Duplication and Repurposing as Sources of Structural Novelty

Claude W. dePamphilis, Malay Das, Michael P. Timko, 2014, Molecular biology and evolution.

Detecting and Characterizing the Highly Divergent Plastid Genome of the Nonphotosynthetic Parasitic Plant Hydnora visseri (Hydnoraceae)

Sarah T. Wagner, C. Neinhuis, C. dePamphilis, 2016, Genome biology and evolution.

Leveraging Transcriptome Data for Enhanced Gene Expression Analysis in Apple

L. Kalcsits, L. Honaas, Heidi Hargarten, 2018, Journal of the American Society for Horticultural Science.

"Stealth dissemination" of macrophage-tumor cell fusions cultured from blood of patients with pancreatic ductal adenocarcinoma

Christopher O. McGovern, T. Abraham, C. dePamphilis, 2017, PloS one.

Transcriptomics of host-specific interactions in natural populations of the parasitic plant purple witchweed (Striga hermonthica)

C. dePamphilis, M. Timko, S. Hearne, 2019, Weed Science.

The Parasitic Plant Genome Project: New Tools for Understanding the Biology of Orobanche and Striga

C. dePamphilis, J. Yoder, M. Timko, 2012, Weed Science.

Application of qRT-PCR and RNA-Seq analysis for the identification of housekeeping genes useful for normalization of gene expression values during Striga hermonthica development

C. dePamphilis, J. Yoder, M. Timko, 2012, Molecular Biology Reports.

Transcriptomes of the Parasitic Plant Family Orobanchaceae Reveal Surprising Conservation of Chlorophyll Synthesis

Lena L. Landherr, C. dePamphilis, J. Yoder, 2011, Current Biology.

Report itic Plant Family Orobanchaceae Reveal Surprising Conservation of Chlorophyll Synthesis

Lena L. Landherr, C. dePamphilis, J. Yoder, 2011 .

SHR4z, a novel decoy effector from the haustorium of the parasitic weed Striga gesnerioides, suppresses host plant immunity

M. Timko, Hai Liu, E. Wafula, 2019, The New phytologist.

Horizontal gene transfer is more frequent with increased heterotrophy and contributes to parasite adaptation

Naomi S. Altman, S. Schuster, C. dePamphilis, 2016, Proceedings of the National Academy of Sciences.

Functional genomics of a generalist parasitic plant: Laser microdissection of host-parasite interface reveals host-specific patterns of parasite gene expression

Naomi S. Altman, C. dePamphilis, J. Yoder, 2013, BMC Plant Biology.

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

C. dePamphilis, E. Wafula, A. Harkess, 2021, bioRxiv.

Phylogenetic analysis of pectin-related gene families in Physcomitrella patens and nine other plant species yields evolutionary insights into cell walls

Thomas W. McCarthy, C. T. Anderson, C. dePamphilis, 2014, BMC Plant Biology.

Risk versus reward: host dependent parasite mortality rates and phenotypes in the facultative generalist Triphysaria versicolor

Naomi S. Altman, C. dePamphilis, J. Yoder, 2019, BMC Plant Biology.

Comparative Analysis of the Apple Root Transcriptome as Affected by Rootstock Genotype and Brassicaceae Seed Meal Soil Amendment: Implications for Plant Health

M. Mazzola, L. Honaas, Likun Wang, 2021, Microorganisms.

Transcriptomic approach to uncover dynamic events in the development of mid-season sunburn in apple fruit.

Naomi S. Altman, C. dePamphilis, L. Kalcsits, 2023, G3.

A practical examination of RNA isolation methods for European pear (Pyrus communis)

L. Honaas, Elena Kahn, 2017, BMC Research Notes.

Study Design for Sequencing Studies

Martin Krzywinski, Naomi S Altman, Loren A Honaas, 2016, Statistical Genomics.

Comparative Transcriptome Analyses Reveal Core Parasitism Genes and Suggest Gene Duplication and Repurposing as Sources of Structural Novelty

Naomi S. Altman, Lena L. Landherr, C. dePamphilis, 2014, Molecular biology and evolution.

Risk versus reward: host dependent parasite mortality rates and phenotypes in the facultative generalist Triphysaria versicolor

Naomi S. Altman, C. dePamphilis, J. Yoder, 2019, BMC Plant Biology.