Evidence map›Paper›PMID 25015382›Full record

ArticleGenome research2014

Genomic analysis of the causative agents of coccidiosis in domestic chickens.

Adam J Reid, Damer P Blake, Hifzur R Ansari, Karen Billington, Hilary P Browne, Josephine Bryant, Matt Dunn, Stacy S Hung, Fumiya Kawahara, Diego Miranda-Saavedra and 25 more

Open access · bronzeAbstract read
In one paragraph

Article in Genome research, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 125 papers.

0numbers the graph read from it
0cells of the map it votes in
125citing papers in PubMed
–field-weighted citation impact
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

125 citing papers in PubMed, 253 citations in OpenAlex.

  1. Review
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  3. SenescentMicroorganisms · 2026
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  8. Comparative genomic analysis of fiveMicrobial genomics · 2025
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  11. Article
  12. Article
  13. Review
  14. Article
  15. Article
  16. Molecular and histopathological characterization ofFrontiers in veterinary science · 2025
    Article
  17. Article
  18. Article
  19. Article
  20. Article

65 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

35 authors at 15 institutions in 10 countries.

Adam J ReidWellcome Trust Sanger Institute, Genome Campus, Hinxton, Cambridgeshire CB10 1SA, United Kingdom;
Damer P BlakeRoyal Veterinary College, North Mymms, Hertfordshire AL9 7TA, United Kingdom; The Pirbright Institute, Compton Laboratory, Newbury, Berkshire RG20 7NN, United Kingdom;
Hifzur R AnsariComputational Bioscience Research Center, Biological Environmental Sciences and Engineering Division, King Abdullah University of Science and Technology, Thuwal, Jeddah 23955-6900, Kingdom of Saudi Arabia;
Karen BillingtonThe Pirbright Institute, Compton Laboratory, Newbury, Berkshire RG20 7NN, United Kingdom;
Hilary P BrowneWellcome Trust Sanger Institute, Genome Campus, Hinxton, Cambridgeshire CB10 1SA, United Kingdom;
Josephine BryantWellcome Trust Sanger Institute, Genome Campus, Hinxton, Cambridgeshire CB10 1SA, United Kingdom;
Matt DunnWellcome Trust Sanger Institute, Genome Campus, Hinxton, Cambridgeshire CB10 1SA, United Kingdom;
Stacy S HungProgram in Molecular Structure and Function, Hospital for Sick Children and Departments of Biochemistry and Molecular Genetics, University of Toronto, Toronto, Ontario M5G 1X8, Canada;
Fumiya KawaharaNippon Institute for Biological Science, Ome, Tokyo 198-0024, Japan;
Diego Miranda-SaavedraFibrosis Laboratories, Institute of Cellular Medicine, Newcastle University Medical School, Framlington Place, Newcastle upon Tyne NE2 4HH, United Kingdom;
Tareq B MalasComputational Bioscience Research Center, Biological Environmental Sciences and Engineering Division, King Abdullah University of Science and Technology, Thuwal, Jeddah 23955-6900, Kingdom of Saudi Arabia;
Tobias MourierCentre for GeoGenetics, Natural History Museum of Denmark, University of Copenhagen, 1350 Copenhagen, Denmark;
Hardeep NaghraWellcome Trust Sanger Institute, Genome Campus, Hinxton, Cambridgeshire CB10 1SA, United Kingdom; School of Life Sciences, Centre for Biomolecular Sciences, University of Nottingham, Nottingham NG7 2RD, United Kingdom;
Mridul NairComputational Bioscience Research Center, Biological Environmental Sciences and Engineering Division, King Abdullah University of Science and Technology, Thuwal, Jeddah 23955-6900, Kingdom of Saudi Arabia;
Thomas D OttoWellcome Trust Sanger Institute, Genome Campus, Hinxton, Cambridgeshire CB10 1SA, United Kingdom;
Neil D RawlingsEuropean Bioinformatics Institute, Genome Campus, Hinxton, Cambridgeshire CB10 1SA, United Kingdom;
Pierre RivaillerThe Pirbright Institute, Compton Laboratory, Newbury, Berkshire RG20 7NN, United Kingdom; Division of Viral Diseases, Centers for Disease Control and Prevention, Atlanta, Georgia 30333, USA;
Alejandro Sanchez-FloresUnidad Universitaria de Apoyo Bioinformático, Institute of Biotechnology, Universidad Nacional Autónoma de México, Cuernavaca, Morelos 62210, Mexico;
Mandy SandersWellcome Trust Sanger Institute, Genome Campus, Hinxton, Cambridgeshire CB10 1SA, United Kingdom;
Chandra SubramaniamThe Pirbright Institute, Compton Laboratory, Newbury, Berkshire RG20 7NN, United Kingdom;
Yea-Ling TaySchool of Biosciences and Biotechnology, Faculty of Science and Technology, Universiti Kebangsaan Malaysia, 43600 UKM Bangi, Selangor DE, Malaysia; Malaysia Genome Institute, Jalan Bangi, 43000 Kajang, Selangor DE, Malaysia;
Yong WooComputational Bioscience Research Center, Biological Environmental Sciences and Engineering Division, King Abdullah University of Science and Technology, Thuwal, Jeddah 23955-6900, Kingdom of Saudi Arabia;
Xikun WuThe Pirbright Institute, Compton Laboratory, Newbury, Berkshire RG20 7NN, United Kingdom; Amgen Limited, Uxbridge UB8 1DH, United Kingdom;
Bart BarrellWellcome Trust Sanger Institute, Genome Campus, Hinxton, Cambridgeshire CB10 1SA, United Kingdom;
Paul H DearMRC Laboratory of Molecular Biology, Cambridge CB2 0QH, United Kingdom;
Christian DoerigDepartment of Microbiology, Monash University, Clayton VIC 3800, Australia;
Arthur GruberDepartament of Parasitology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, SP 05508-000, Brazil;
Alasdair C IvensCentre for Immunity, Infection and Evolution, Ashworth Laboratories, School of Biological Sciences, University of Edinburgh, Edinburgh EH9 3JT, United Kingdom;
John ParkinsonProgram in Molecular Structure and Function, Hospital for Sick Children and Departments of Biochemistry and Molecular Genetics, University of Toronto, Toronto, Ontario M5G 1X8, Canada;
Marie-Adèle RajandreamWellcome Trust Sanger Institute, Genome Campus, Hinxton, Cambridgeshire CB10 1SA, United Kingdom;
Martin W ShirleyThe Pirbright Institute, Pirbright Laboratory, Pirbright, Surrey GU24 0NF, United Kingdom.
Kiew-Lian WanSchool of Biosciences and Biotechnology, Faculty of Science and Technology, Universiti Kebangsaan Malaysia, 43600 UKM Bangi, Selangor DE, Malaysia; Malaysia Genome Institute, Jalan Bangi, 43000 Kajang, Selangor DE, Malaysia;
Matthew BerrimanWellcome Trust Sanger Institute, Genome Campus, Hinxton, Cambridgeshire CB10 1SA, United Kingdom;
Fiona M TomleyRoyal Veterinary College, North Mymms, Hertfordshire AL9 7TA, United Kingdom; The Pirbright Institute, Compton Laboratory, Newbury, Berkshire RG20 7NN, United Kingdom; ar11@sanger.ac.uk ftomley@rvc.ac.uk arnab.pain@kaust.edu.sa.
Arnab PainComputational Bioscience Research Center, Biological Environmental Sciences and Engineering Division, King Abdullah University of Science and Technology, Thuwal, Jeddah 23955-6900, Kingdom of Saudi Arabia; ar11@sanger.ac.uk ftomley@rvc.ac.uk arnab.pain@kaust.edu.sa.
Wellcome Sanger Institute · GBThe Pirbright Institute · GBKing Abdullah University of Science and Technology · SAMalaysia Genome Institute · MYUniversity of Toronto · CACentre for Immunity, Infection and Evolution · GBEuropean Bioinformatics Institute · GBMonash University · AUMRC Laboratory of Molecular Biology · GBNewcastle University · GBNippon Institute for Biological Science · JPUniversidade de São Paulo · BRUniversidad Nacional Autónoma de México · MXUniversity of Copenhagen · DKUniversity of Nottingham · GB

Funding

Biotechnology and Biological Sciences Research Council BB/F002564/1Biotechnology and Biological Sciences Research Council BBS/B/04196Biotechnology and Biological Sciences Research Council BBS/E/I/00001421Biotechnology and Biological Sciences Research Council S17413Biotechnology and Biological Sciences Research Council S19705Biotechnology and Biological Sciences Research Council S19705/6CIHR MOP84556Medical Research Council MC_U105131672Wellcome Trust
6 · The paper itself

Abstract

Global production of chickens has trebled in the past two decades and they are now the most important source of dietary animal protein worldwide. Chickens are subject to many infectious diseases that reduce their performance and productivity. Coccidiosis, caused by apicomplexan protozoa of the genus Eimeria, is one of the most important poultry diseases. Understanding the biology of Eimeria parasites underpins development of new drugs and vaccines needed to improve global food security. We have produced annotated genome sequences of all seven species of Eimeria that infect domestic chickens, which reveal the full extent of previously described repeat-rich and repeat-poor regions and show that these parasites possess the most repeat-rich proteomes ever described. Furthermore, while no other apicomplexan has been found to possess retrotransposons, Eimeria is home to a family of chromoviruses. Analysis of Eimeria genes involved in basic biology and host-parasite interaction highlights adaptations to a relatively simple developmental life cycle and a complex array of co-expressed surface proteins involved in host cell binding.

Indexed as

Genome, ProtozoanAnimalsCell LineChickensChromosome MappingCoccidiosisEimeriaGene Expression ProfilingPhylogenyPoultry DiseasesProteomeProtozoan ProteinsSyntenyProteomeProtozoan Proteins

Identifiers

PMID25015382
PMCPMC4199364
OpenAlexW2146041009

What OpenQuestion holds

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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.