Evidence map›Paper›PMID 21784931›Full record

ArticleJournal of bacteriology2011

Two new complete genome sequences offer insight into host and tissue specificity of plant pathogenic Xanthomonas spp.

Adam J Bogdanove, Ralf Koebnik, Hong Lu, Ayako Furutani, Samuel V Angiuoli, Prabhu B Patil, Marie-Anne Van Sluys, Robert P Ryan, Damien F Meyer, Sang-Wook Han and 33 more

Open access · bronzeAbstract read
In one paragraph

Article in Journal of bacteriology, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 94 papers.

0numbers the graph read from it
0cells of the map it votes in
94citing papers in PubMed
23.8field-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

94 citing papers in PubMed, 202 citations in OpenAlex.

  1. Review
  2. Article
  3. Article
  4. Article
  5. Review
  6. Article
  7. International journal of systematic and evolutionary microbiology · 2024
    Article
  8. Article
  9. Article
  10. Article
  11. Complete genome sequence of an Israeli isolate ofFrontiers in plant science · 2023
    Article
  12. Article
  13. Article
  14. Frontiers in microbiology · 2022
    Article
  15. Article
  16. Review
  17. TheMicroorganisms · 2021
    Article
  18. Article
  19. Secrete or perish: The role of secretion systems inComputational and structural biotechnology journal · 2021
    Review
  20. Article

34 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

43 authors at 18 institutions in 9 countries.

Adam J BogdanoveDepartment of Plant Pathology, Iowa State University, 351 Bessey Hall, Iowa State University, Ames, IA 50011, USA. ajbog@iastate.edu
Ralf Koebnik
Hong Lu
Ayako Furutani
Samuel V Angiuoli
Prabhu B Patil
Marie-Anne Van Sluys
Robert P Ryan
Damien F Meyer
Sang-Wook Han
Gudlur Aparna
Misha Rajaram
Arthur L Delcher
Adam M Phillippy
Daniela Puiu
Michael C Schatz
Martin Shumway
Daniel D Sommer
Cole Trapnell
Faiza Benahmed
George Dimitrov
Ramana Madupu
Diana Radune
Steven Sullivan
Gopaljee Jha
Hiromichi Ishihara
Sang-Won Lee
Alok Pandey
Vikas Sharma
Malinee Sriariyanun
Boris Szurek
Casiana M Vera-Cruz
Karin S Dorman
Pamela C Ronald
Valérie Verdier
J Maxwell Dow
Ramesh V Sonti
Seiji Tsuge
Volker P Brendel
Pablo D Rabinowicz
Jan E Leach
Frank F White
Steven L Salzberg
University of Maryland, College Park · USIowa State University · USCentre for Cellular and Molecular Biology · INUniversity of California, Davis · USColorado State University · USCouncil of Scientific and Industrial Research · INInstitut de Recherche pour le Développement · FRUniversity College Cork · IECenter for Veterinary Medicine · USCentre de Coopération Internationale en Recherche Agronomique pour le Développement · FRHarvard University · USInstitute of Agrobiological Sciences · JPInternational Rice Research Institute · PHKansas State University · USKyoto Prefectural University · JPNational Institutes of Health · USNew York University · USUniversity of Maryland, Baltimore · US

Funding

Computational Methods for Genome Assembly, Transcript Assembly, and Variant DiscoveryR01HG006677 · NHGRI · JOHNS HOPKINS UNIVERSITY · PI SALZBERG, STEVEN L. · 2011 to 2025
$10.7M
COMPUTATIONAL MODELING OF GENES AND GENE STRUCTURER01LM006845 · NLM · UNIV OF MARYLAND, COLLEGE PARK · PI SALZBERG, STEVEN L. · 1999 to 2010
$5.9M
Alignment Software for Second-Generation SequencingR01HG006102 · NHGRI · JOHNS HOPKINS UNIVERSITY · PI SALZBERG, STEVEN L. · 2011 to 2014
$2.2M
Bioinformatics Software for Analyzing Microbial GenomesR01GM083873 · NIGMS · UNIV OF MARYLAND, COLLEGE PARK · PI SALZBERG, STEVEN L. · 2008 to 2017
$2.1M
NHGRI NIH HHS R01 HG006102NHGRI NIH HHS R01 HG006677NIGMS NIH HHS R01 GM083873NLM NIH HHS R01 LM006845
6 · The paper itself

Abstract

Xanthomonas is a large genus of bacteria that collectively cause disease on more than 300 plant species. The broad host range of the genus contrasts with stringent host and tissue specificity for individual species and pathovars. Whole-genome sequences of Xanthomonas campestris pv. raphani strain 756C and X. oryzae pv. oryzicola strain BLS256, pathogens that infect the mesophyll tissue of the leading models for plant biology, Arabidopsis thaliana and rice, respectively, were determined and provided insight into the genetic determinants of host and tissue specificity. Comparisons were made with genomes of closely related strains that infect the vascular tissue of the same hosts and across a larger collection of complete Xanthomonas genomes. The results suggest a model in which complex sets of adaptations at the level of gene content account for host specificity and subtler adaptations at the level of amino acid or noncoding regulatory nucleotide sequence determine tissue specificity.

Indexed as

ArabidopsisGenome, BacterialMolecular Sequence DataOryzaXanthomonas

Identifiers

PMID21784931
PMCPMC3187462
OpenAlexW2150953285

What OpenQuestion holds

Textmetadata
Read underepoch 390

Registered trials

None linked

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.