Variant antigen repertoires in populations and experimental infections can be profiled from deep sequence data using universal protein motifs

scientific article published on 13 July 2018

Variant antigen repertoires in populations and experimental infections can be profiled from deep sequence data using universal protein motifs is …
instance of (P31):
scholarly articleQ13442814

External links are
P356DOI10.1101/GR.234146.118
P932PMC publication ID6120623
P698PubMed publication ID30006414

P50authorAitor Casas-SánchezQ88552225
Matthew BerrimanQ28025032
Mandy SandersQ28913741
Alvaro Acosta-SerranoQ43170294
Andrew P JacksonQ55128381
Sara Silva PereiraQ56556319
P2093author name stringLee R Haines
Harry Noyes
Steve Kemp
Moses Ogugo
Kihara Absolomon
P2860cites workGenome sequence of the human malaria parasite Plasmodium falciparumQ22122524
Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and CufflinksQ24633890
Analysis of the VSG gene silent archive in Trypanosoma brucei reveals that mosaic gene expression is prominent in antigenic variation and is favored by archive substructureQ24676882
Sub-grouping of Plasmodium falciparum 3D7 var genes based on sequence analysis of coding and non-coding regionsQ24804747
Plasmodium falciparum variant surface antigen expression patterns during malariaQ24811060
Basic local alignment search toolQ25938991
How Does the VSG Coat of Bloodstream Form African Trypanosomes Interact with External Proteins?Q26771466
vls Antigenic Variation Systems of Lyme Disease Borrelia: Eluding Host Immunity through both Random, Segmental Gene Conversion and Framework HeterogeneityQ26829575
The origins of the trypanosome genome strains Trypanosoma brucei brucei TREU 927, T. b. gambiense DAL 972, T. vivax Y486 and T. congolense IL3000Q26852165
New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0Q27860476
Clustal W and Clustal X version 2.0Q27860517
MRBAYES: Bayesian inference of phylogenetic treesQ27860538
Fast gapped-read alignment with Bowtie 2Q27860699
The variant surface glycoprotein as a tool for adaptation in African trypanosomesQ82563214
A general empirical model of protein evolution derived from multiple protein families using a maximum-likelihood approachQ27860716
Discovery of mating in the major African livestock pathogen Trypanosoma congolenseQ28475486
A Unique Virulence Gene Occupies a Principal Position in Immune Evasion by the Malaria Parasite Plasmodium falciparumQ28547338
RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogeniesQ28658397
The large diverse gene family var encodes proteins involved in cytoadherence and antigenic variation of plasmodium falciparum-infected erythrocytesQ29393314
A new generation of homology search tools based on probabilistic inferenceQ29616170
MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger DatasetsQ29616345
Cloning the P. falciparum gene encoding PfEMP1, a malarial variant antigen and adherence receptor on the surface of parasitized human erythrocytesQ29618254
Switches in expression of Plasmodium falciparum var genes correlate with changes in antigenic and cytoadherent phenotypes of infected erythrocytesQ29618991
Vector transmission regulates immune control of Plasmodium virulenceQ30445852
Antigenic diversity is generated by distinct evolutionary mechanisms in African trypanosome speciesQ30506471
The genome sequence of Trypanosoma brucei gambiense, causative agent of chronic human african trypanosomiasisQ30981565
Metacyclic form-specific variable surface glycoprotein-encoding genes of Trypanosoma (Nannomonas) congolenseQ31149167
The central roles of telomeres and subtelomeres in antigenic variation in African trypanosomesQ33222616
Population genomics of the immune evasion (var) genes of Plasmodium falciparumQ33279159
Analysis of expressed sequence tags from the four main developmental stages of Trypanosoma congolenseQ33475384
The role of genomics in tracking the evolution of influenza A virusQ33512510
A molecular epidemiological study of var gene diversity to characterize the reservoir of Plasmodium falciparum in humans in AfricaQ33828802
Genome sequence of the tsetse fly (Glossina morsitans): vector of African trypanosomiasisQ33830069
Characterization of the ligand-binding site of the transferrin receptor in Trypanosoma brucei demonstrates a structural relationship with the N-terminal domain of the variant surface glycoproteinQ33887871
CRISPR/Cas9 Genome Editing Reveals That the Intron Is Not Essential for var2csa Gene Activation or Silencing in Plasmodium falciparumQ33911270
Antigenic variation in African trypanosomesQ34136433
Mosaic VSGs and the scale of Trypanosoma brucei antigenic variation.Q34357533
Mechanism of Trypanosoma brucei gambiense resistance to human serumQ34365663
The in vivo dynamics of antigenic variation in Trypanosoma bruceiQ34468884
Comparative genomics reveals multiple genetic backgrounds of human pathogenicity in the Trypanosoma brucei complexQ34472594
A VSG expression site-associated gene confers resistance to human serum in Trypanosoma rhodesienseQ34484958
Differential var gene transcription in Plasmodium falciparum isolates from patients with cerebral malaria compared to hyperparasitaemiaQ34568283
The TgsGP gene is essential for resistance to human serum in Trypanosoma brucei gambienseQ35008824
Hemizygous subtelomeres of an African trypanosome chromosome may account for over 75% of chromosome lengthQ35012983
Diversity of the envelope glycoprotein among human immunodeficiency virus type 1 isolates of clade E from Asia and AfricaQ35860840
Population genomics reveals the origin and asexual evolution of human infective trypanosomesQ35904147
Mosquito Passage Dramatically Changes var Gene Expression in Controlled Human Plasmodium falciparum InfectionsQ35987064
Association of severe noncerebral Plasmodium falciparum malaria in Brazil with expressed PfEMP1 DBL1 alpha sequences lacking cysteine residuesQ36087903
Architecture of a Host-Parasite Interface: Complex Targeting Mechanisms Revealed Through ProteomicsQ36103884
Genetic diversity of expressed Plasmodium falciparum var genes from Tanzanian children with severe malariaQ36368098
Immunology and immunopathology of African trypanosomiasisQ36672751
Metacyclic variant surface glycoprotein genes of Trypanosoma brucei subsp. rhodesiense are activated in situ, and their expression is transcriptionally regulatedQ36915257
Restriction of the alternative pathway of human complement by intact Trypanosoma brucei subsp. gambienseQ37054160
Virulence in Trypanosoma congolense Savannah subgroup. A comparison between strains and transmission cyclesQ37825919
How the African trypanosomes evade host immune killingQ37831950
The within-host dynamics of African trypanosome infectionsQ38543502
Discovery and genomic analyses of hybridization between divergent lineages of Trypanosoma congolense, causative agent of Animal African TrypanosomiasisQ38650431
Animal African Trypanosomiasis: Time to Increase Focus on Clinically Relevant Parasite and Host Species.Q38831907
Characterization of Trypanosoma congolense serodemes in stocks isolated from Chipata District, ZambiaQ39010229
Variant specific glycoprotein of Trypanosoma brucei consists of two domains each having an independently conserved pattern of cysteine residuesQ43874305
Capturing the variant surface glycoprotein repertoire (the VSGnome) of Trypanosoma brucei Lister 427.Q44314256
Enzyme polymorphism and the distribution of Trypanosoma congolense isolatesQ46471285
An estimate of the size of the metacyclic variable antigen repertoire of Trypanosoma brucei rhodesienseQ47177387
Evidence for the importance of genetic structuring to the structural and functional specialization of the Plasmodium falciparum var gene familyQ47971150
The serum resistance-associated (SRA) gene of Trypanosoma brucei rhodesiense encodes a variant surface glycoprotein-like proteinQ48077663
Beyond immune escape: a variant surface glycoprotein causes suramin resistance in Trypanosoma brucei.Q48265686
A receptor-like flagellar pocket glycoprotein specific to Trypanosoma brucei gambienseQ48375756
An artificial feeding technique for GlossinaQ52491695
Trypanosoma congolense: Susceptibility of cattle to cyclical challengeQ52515291
Studies on Trypanosoma (nannomonas) congolense IV. Experimental immunization of mice against tsetse fly challenge.Q52515881
Trypanosoma rhodesiense blood forms express all antigen specificities relevant to protection against metacyclic (insect form) challengeQ52516792
Instability of the Trypanosoma brucei rhodesiense metacyclic variable antigen repertoire.Q52523867
Identification of metacyclic trypanosomes in the hypopharynx of tsetse flies, infected in nature or in the laboratoryQ52640302
All metacyclic variable antigen types of Trypanosoma congolense identified using monoclonal antibodiesQ53712349
Hydrodynamic Flow-Mediated Protein Sorting on the Cell Surface of TrypanosomesQ56656155
Alternative pathway activation of complement by African trypanosomes lacking a glycoprotein coatQ71080684
P433issue9
P407language of work or nameEnglishQ1860
P921main subjectexperimental infectionQ107184421
P304page(s)1383-1394
P577publication date2018-07-13
P1433published inGenome ResearchQ5533485
P1476titleVariant antigen repertoires in Trypanosoma congolense populations and experimental infections can be profiled from deep sequence data using universal protein motifs
P478volume28

Reverse relations

cites work (P2860)
Q58702714The Structure of a Conserved Telomeric Region Associated with Variant Antigen Loci in the Blood Parasite Trypanosoma congolense
Q93172803VAPPER: High-throughput variant antigen profiling in African trypanosomes of livestock
Q89686189Variant antigen diversity in Trypanosoma vivax is not driven by recombination

Search more.