Haemophilus
Haemophilus is a genus of Gram-negative, pleomorphic, coccobacilli bacteria belonging to the Pasteurellaceae family, including common commensals of the human upper respiratory tract, some of which are associated with human disease. H. influenzae, and rarely H. parainfluenzae, cause numerous mild and serious infections, including bacteremia, meningitis, pneumonia and otitis media.
Data Downloads
The Sanger Institute has been funded by the Wellcome Trust to sequence the genomes of
Haemophilus influenzae serotype B strain 10810
Haemophilus influenzae biogroup Aegypticus BPF strain F3031
Haemophilus influenzae biogroup Aegypticus conjunctivitis strain F3047
Haemophilus parainfluenzae strain T3T1
Collaborators
Dr. Derrick Crook of the University of Oxford Nuffield Department of Clinical Laboratory Sciences, John Radcliffe Hospital, Oxford
Dr. Derek Hood and Prof. Richard Moxon of the University of Oxford Department of Paediatrics, John Radcliffe Hospital, Oxford
Professor Simon Kroll of the Department of Paediatric Infectious Diseases at Imperial College, London
Also in collaboration with Dr. Derek Hood and Dr. Peter Power of the University of Oxford Department of Paediatrics, John Radcliffe Hospital, Oxford we have initiated a Wellcome Trust funded project to study population structure in the genus Haemophilus and mechanisms of recombination in Haemophilus influenzae and Neisseria meningitidis.
Published Genome Data
We have completed the details of several strains of Haemophilus, the details of which are given below.
Finished Sequence
Haemophilus influenzae strain 10810
The genome of Haemophilus influenzae 10810is 1,981,535 and has a G+C content of 38.14%. The data is available for searching on our BLAST server or for download from our FTP site and from EMBL/GenBank with accession number FQ312006.
Haemophilus influenzae strain F3031
We have completed the genome of Haemophilus influenzae biogroup Aegypticus BPF strain F3031. Biogroup Aegypticus is normally associated with purulent conjuctivitis. Strain F3031 is a representative of a clone associated with the Brazilian purpuric fever outbreak in the early 1980s. The genome consists of a single chromosome of 1,985,824 bp with a G+C content of 38.22% and a plasmid of 32,433 bp.
The genome is available from EMBL/GenBank with accession number FQ670178.
Haemophilus parainfluenzae strain T3T1
Haemophilus parainfluenzae is a Gram negative commensal of the human respiratory tract. Strain T3T1 was obtained from the throat of a healthy child, and has been confirmed by 16S rRNA sequence. The genome is now finished and is 2,086,875 bp in size with a G+C content of 39.57%.
The genome is available from EMBL/GenBank with accession number FQ312002.
Shotgun and assembly data from these projects are available from our FTP site.
Ongoing Projects
Haemophilus influenzae strain F3047
Haemophilus influenzae is a Gram negative commensal of the human respiratory tract that can cause meningitis and other diseases. Strain F3047 is a representative of biogroup Aegypticus which is normally associated with purulent conjuctivitis.
At present there are 31,070 reads totalling 16.797 Mb and giving a theoretical coverage of 99.95% of the genome. There are 7 contigs > 1kb (3 contigs >2kb) with a total size of 2.207 Mb. Finishing of this genome is in progress.
Studies
- Discovery of sequence diversity in Haemophilus influenzae
- Identification of Streptococcus suis genes required for infection of pig nasal septum IVOC using TraDIS
- Haemophilus parasuis genome comparisons
- Illumina sequencing of the Finnish otitis media non-typable Haemophilus influenzae strains
- Diversity of MRSA
- Integration of the host and pathogen genetics in bacterial meningitis
- NCTC 3000
- Haemophilus ducreyi genome sequencing
- TraDIS study of a multivalent vaccine and single platform diagnostic for bacterial respiratory diseases of pigs
- Genomic characterization of bladder bacteria from healthy and infected women
- Lung Culturomics
- PacBio sequencing of bacteria causing respiratory diseases of pigs
- Bacterial ulcerative skin diseases
Discovery of sequence diversity in Haemophilus influenzae
Identification of Streptococcus suis genes required for infection of pig nasal septum IVOC using TraDIS
Haemophilus parasuis genome comparisons
Illumina sequencing of the Finnish otitis media non-typable Haemophilus influenzae strains
Diversity of MRSA
Integration of the host and pathogen genetics in bacterial meningitis
Sample | Strain | Run Accession |
---|---|---|
2842STDY5882089 | Haemophilus influenzae 2120995 I | ERR716333 |
2842STDY5882088 | Haemophilus influenzae 2120777 II | ERR716332 |
2842STDY5882087 | Haemophilus influenzae 2120777 I | ERR716331 |
2842STDY5882086 | Haemophilus influenzae 2120641 II | ERR716330 |
2842STDY5882085 | Haemophilus influenzae 2120641 I | ERR716329 |
2842STDY5882084 | Haemophilus influenzae 2120640 I | ERR716328 |
2842STDY5882083 | Haemophilus influenzae 2120383 I | ERR716327 |
2842STDY5882082 | Haemophilus influenzae 2120337 I | ERR716326 |
2842STDY5882081 | Haemophilus influenzae 2120236 II | ERR716325 |
2842STDY5882080 | Haemophilus influenzae 2120236 I | ERR716324 |
2842STDY5882079 | Haemophilus influenzae 2111538 II | ERR716323 |
2842STDY5882078 | Haemophilus influenzae 2111538 I | ERR716322 |
2842STDY5882077 | Haemophilus influenzae 2111305 I | ERR716321 |
2842STDY5882076 | Haemophilus influenzae 2110552 II | ERR716320 |
2842STDY5882075 | Haemophilus influenzae 2110552 I | ERR716319 |
2842STDY5882074 | Haemophilus influenzae 2110449 I | ERR716318 |
2842STDY5882073 | Haemophilus influenzae 2110161 I | ERR716317 |
2842STDY5882072 | Haemophilus influenzae 2104191 I | ERR716316 |
2842STDY5882071 | Haemophilus influenzae 2103585 I | ERR716315 |
2842STDY5882070 | Haemophilus influenzae 2103129 I | ERR716314 |
2842STDY5882069 | Haemophilus influenzae 2100459 I | ERR716313 |
2842STDY5882068 | Haemophilus influenzae 2100150 I | ERR716312 |
2842STDY5882067 | Haemophilus influenzae 2094445 I | ERR716311 |
2842STDY5882066 | Haemophilus influenzae 2094389 I | ERR716310 |
2842STDY5882065 | Haemophilus influenzae 2094218 II | ERR716309 |
2842STDY5882064 | Haemophilus influenzae 2094218 I | ERR716308 |
2842STDY5882063 | Haemophilus influenzae 2091221 I | ERR716307 |
2842STDY5882062 | Haemophilus influenzae 2091141 II | ERR716306 |
2842STDY5882061 | Haemophilus influenzae 2091141 I | ERR716305 |
2842STDY5882060 | Haemophilus influenzae 2091118 II | ERR716304 |
2842STDY5882059 | Haemophilus influenzae 2091118 I | ERR716303 |
2842STDY5882058 | Haemophilus influenzae 2090917 II | ERR716302 |
2842STDY5882057 | Haemophilus influenzae 2090917 I | ERR716301 |
2842STDY5882056 | Haemophilus influenzae 2082180 II | ERR716300 |
2842STDY5882055 | Haemophilus influenzae 2082180 I | ERR716299 |
2842STDY5882054 | Haemophilus influenzae 2081621 I | ERR716298 |
2842STDY5882053 | Haemophilus influenzae 2080837 I | ERR716297 |
2842STDY5882052 | Haemophilus influenzae 2080776 II | ERR716296 |
2842STDY5882051 | Haemophilus influenzae 2080776 I | ERR716295 |
2842STDY5882050 | Haemophilus influenzae 2080146 II | ERR716294 |
2842STDY5882049 | Haemophilus influenzae 2080146 I | ERR716293 |
2842STDY5882048 | Haemophilus influenzae 2072015 II | ERR716292 |
2842STDY5882047 | Haemophilus influenzae 2072015 I | ERR716291 |
2842STDY5882046 | Haemophilus influenzae 2071329 II | ERR716290 |
2842STDY5882045 | Haemophilus influenzae 2071329 I | ERR716289 |
2842STDY5882044 | Haemophilus influenzae 2070985 I | ERR716288 |
2842STDY5882043 | Haemophilus influenzae 2070558 I | ERR716287 |
2842STDY5882042 | Haemophilus influenzae 2070294 I | ERR716286 |
2842STDY5882041 | Haemophilus influenzae 2070176 II | ERR716285 |
2842STDY5882040 | Haemophilus influenzae 2070176 I | ERR716284 |
2842STDY5882039 | Haemophilus influenzae 2061671 I | ERR716283 |
2842STDY5882038 | Haemophilus influenzae 2061476 I | ERR716282 |
2842STDY5882037 | Haemophilus influenzae 2061326 II | ERR716281 |
2842STDY5882036 | Haemophilus influenzae 2061326 I | ERR716280 |
2842STDY5882035 | Haemophilus influenzae 2061165 II | ERR716279 |
2842STDY5882034 | Haemophilus influenzae 2061165 I | ERR716278 |
2842STDY5882033 | Haemophilus influenzae 2011790 II | ERR716277 |
2842STDY5882032 | Haemophilus influenzae 2011790 I | ERR716276 |
2842STDY5882031 | Haemophilus influenzae 2011368 I | ERR716275 |
2842STDY5882030 | Haemophilus influenzae 2011269 I | ERR716274 |
2842STDY5882029 | Haemophilus influenzae 2011242 I | ERR716273 |
2842STDY5882028 | Haemophilus influenzae 2010830 I | ERR716272 |
2842STDY5882027 | Haemophilus influenzae 2010617 I | ERR716271 |
2842STDY5882026 | Haemophilus influenzae 2010391 I | ERR716270 |
2842STDY5882025 | Haemophilus influenzae 2001495 I | ERR716269 |
2842STDY5882024 | Haemophilus influenzae 2001085 I | ERR716268 |
2842STDY5882023 | Haemophilus influenzae 2000637 I | ERR716267 |
2842STDY5882022 | Haemophilus influenzae 2000618 II | ERR716266 |
2842STDY5882021 | Haemophilus influenzae 2000618 I | ERR716265 |
2842STDY5882020 | Haemophilus influenzae 2000603 I | ERR716264 |
2842STDY5882019 | Haemophilus influenzae 2000304 II | ERR716263 |
2842STDY5882018 | Haemophilus influenzae 2000304 I | ERR716262 |
2842STDY5882017 | Haemophilus influenzae 991885 I | ERR716261 |
2842STDY5882016 | Haemophilus influenzae 991517 I | ERR716260 |
2842STDY5882015 | Haemophilus influenzae 990941 I | ERR716259 |
2842STDY5882014 | Haemophilus influenzae 990445 I | ERR716258 |
NCTC 3000
Haemophilus ducreyi genome sequencing
Sample | Strain | Run Accession |
---|---|---|
Hd_tube_A | Unknown | ERR755800 |
Genomic characterization of bladder bacteria from healthy and infected women
Sample | Strain | Run Accession |
---|---|---|
3454STDY6077218 | Unknown | ERR1045821 |
Lung Culturomics
Sample | Strain | Run Accession |
---|---|---|
2_Run_R | Unknown | ERR968247 |
Bibliography
-
Lineage-specific virulence determinants of Haemophilus influenzae biogroup aegyptius.
Emerging infectious diseases 2012;18;3;449-57
PUBMED: 22377449; PMC: 3309571; DOI: 10.3201/eid1803.110728
Related links
Data Use Statement
This sequencing centre plans on publishing the completed and annotated sequences in a peer-reviewed journal as soon as possible. Permission of the principal investigator should be obtained before publishing analyses of the sequence/open reading frames/genes on a chromosome or genome scale. See our data sharing policy.
Sequencing enquiries
Please address all sequencing enquiries to: pathinfo@sanger.ac.uk