Evidence map›Paper›PMID 25534030›Full record

ArticleMolecular biology and evolution2015

Comparative transcriptome analyses reveal core parasitism genes and suggest gene duplication and repurposing as sources of structural novelty.

Zhenzhen Yang, Eric K Wafula, Loren A Honaas, Huiting Zhang, Malay Das, Monica Fernandez-Aparicio, Kan Huang, Pradeepa C G Bandaranayake, Biao Wu, Joshua P Der and 8 more

Open access · hybridAbstract read
In one paragraph

Article in Molecular biology and evolution, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 85 papers.

0numbers the graph read from it
0cells of the map it votes in
85citing papers in PubMed
15.4field-weighted citation impact, top 1% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

85 citing papers in PubMed, 176 citations in OpenAlex.

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  19. Silencing of a mannitol transport gene inPlant signaling & behavior · 2022
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25 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

18 authors at 5 institutions in 1 country.

Zhenzhen YangIntercollege Graduate Program in Plant Biology, Huck Institutes of the Life Sciences, The Pennsylvania State University Department of Biology, The Pennsylvania State University Institute of Molecular Evolutionary Genetics, Huck Institutes of the Life Sciences, The Pennsylvania State University.
Eric K WafulaDepartment of Biology, The Pennsylvania State University Institute of Molecular Evolutionary Genetics, Huck Institutes of the Life Sciences, The Pennsylvania State University.
Loren A HonaasIntercollege Graduate Program in Plant Biology, Huck Institutes of the Life Sciences, The Pennsylvania State University Department of Biology, The Pennsylvania State University Institute of Molecular Evolutionary Genetics, Huck Institutes of the Life Sciences, The Pennsylvania State University.
Huiting ZhangIntercollege Graduate Program in Plant Biology, Huck Institutes of the Life Sciences, The Pennsylvania State University Department of Biology, The Pennsylvania State University.
Malay DasDepartment of Plant Pathology, Physiology and Weed Science, Virginia Polytechnic Institute and State University.
Monica Fernandez-AparicioDepartment of Plant Pathology, Physiology and Weed Science, Virginia Polytechnic Institute and State University Department of Biology, University of Virginia.
Kan HuangDepartment of Biology, University of Virginia.
Pradeepa C G BandaranayakeDepartment of Plant Sciences, University of California, Davis.
Biao WuDepartment of Plant Sciences, University of California, Davis.
Joshua P DerDepartment of Biology, The Pennsylvania State University Institute of Molecular Evolutionary Genetics, Huck Institutes of the Life Sciences, The Pennsylvania State University.
Christopher R ClarkeDepartment of Plant Pathology, Physiology and Weed Science, Virginia Polytechnic Institute and State University.
Paula E RalphDepartment of Biology, The Pennsylvania State University.
Lena LandherrDepartment of Biology, The Pennsylvania State University.
Naomi S AltmanDepartment of Statistics and Huck Institutes of the Life Sciences, The Pennsylvania State University.
Michael P TimkoDepartment of Biology, University of Virginia.
John I YoderDepartment of Plant Sciences, University of California, Davis.
James H WestwoodDepartment of Plant Pathology, Physiology and Weed Science, Virginia Polytechnic Institute and State University.
Claude W dePamphilisIntercollege Graduate Program in Plant Biology, Huck Institutes of the Life Sciences, The Pennsylvania State University Department of Biology, The Pennsylvania State University Institute of Molecular Evolutionary Genetics, Huck Institutes of the Life Sciences, The Pennsylvania State University cwd3@psu.edu.
Pennsylvania State University · USUniversity of Virginia · USVirginia Tech · USUniversity of California, Davis · USPlant (United States) · US

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

The origin of novel traits is recognized as an important process underlying many major evolutionary radiations. We studied the genetic basis for the evolution of haustoria, the novel feeding organs of parasitic flowering plants, using comparative transcriptome sequencing in three species of Orobanchaceae. Around 180 genes are upregulated during haustorial development following host attachment in at least two species, and these are enriched in proteases, cell wall modifying enzymes, and extracellular secretion proteins. Additionally, about 100 shared genes are upregulated in response to haustorium inducing factors prior to host attachment. Collectively, we refer to these newly identified genes as putative "parasitism genes." Most of these parasitism genes are derived from gene duplications in a common ancestor of Orobanchaceae and Mimulus guttatus, a related nonparasitic plant. Additionally, the signature of relaxed purifying selection and/or adaptive evolution at specific sites was detected in many haustorial genes, and may play an important role in parasite evolution. Comparative analysis of gene expression patterns in parasitic and nonparasitic angiosperms suggests that parasitism genes are derived primarily from root and floral tissues, but with some genes co-opted from other tissues. Gene duplication, often taking place in a nonparasitic ancestor of Orobanchaceae, followed by regulatory neofunctionalization, was an important process in the origin of parasitic haustoria.

Indexed as

Cluster AnalysisEvolution, MolecularGene DuplicationGene Expression ProfilingGenes, PlantMimulusOrobanchaceaeTranscriptomegene duplicationnovel traitsOrobanchaceaeparasitismproteasetranscriptome

Identifiers

PMID25534030
PMCPMC4327159
OpenAlexW2143031751

What OpenQuestion holds

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.