Research and analysis

NOIDs causative agents: week 41 (week ending 16 October 2022)

Updated 16 January 2023

NOIDs weekly report

Laboratories in England have a statutory duty to notify the UK Health Security Agency (UKHSA) of the identification of the following causative agents:

  • Bacillus anthracis
  • Bacillus cereus
  • Bordetella pertussis
  • Borrelia spp
  • Brucella spp
  • Burkholderia mallei
  • Burkholderia pseudomallei
  • Campylobacter spp
  • Carbapenemase-producing Gram-negative bacteria
  • Chikungunya virus
  • Chlamydophila psittaci
  • Clostridium botulinum
  • Clostridium perfringens
  • Clostridium tetani
  • Corynebacterium diphtheriae
  • Corynebacterium ulcerans
  • Coxiella burnetii
  • Crimean-Congo haemorrhagic fever virus
  • Cryptosporidium spp
  • Dengue virus
  • Ebola virus
  • Entamoeba histolytica
  • Escherichia coli O 157
  • Francisella tularensis
  • Giardia lamblia
  • Guanarito virus
  • Haemophilus influenzae (invasive)
  • Hanta virus
  • Hepatitis A
  • Hepatitis B
  • Hepatitis C
  • Hepatitis D
  • Hepatitis E
  • Influenza virus
  • Junin virus
  • Kyasanur Forest disease virus
  • Lassa virus
  • Legionella spp
  • Leptospira interrogans
  • Listeria monocytogenes
  • Machupo virus
  • Marburg virus
  • Measles virus
  • Monkeypox virus
  • Mumps virus
  • Mycobacterium tuberculosis complex
  • Neisseria meningitidis
  • Omsk haemorrhagic fever virus
  • Plasmodium falciparum
  • Plasmodium knowlesi
  • Plasmodium malariae
  • Plasmodium ovale
  • Plasmodium vivax
  • Polio virus
  • Rabies virus
  • Rickettsia spp
  • Rift Valley fever virus
  • Rubella virus
  • Sabia virus
  • Salmonella spp
  • SARS coronavirus
  • Shigella spp
  • Streptococcus group A (invasive)
  • Streptococcus pneumoniae (invasive)
  • Varicella zoster virus
  • Variola virus
  • Vibrio cholerae
  • West Nile virus
  • Yellow fever virus
  • Yersinia pestis

Statutory notifications of causative agents, grouped by root organism

Totals for the current week compared to the previous 5.

Week notification received 2022/36 2022/37 2022/38 2022/39 2022/40 2022/41
Arboviruses            
West nile virus 1 - - 1 1 1
Bacillus            
Bacillus cereus 40 19 19 16 8 12
Bordetella            
Bordetella pertussis - - - 1 - 2
Borrelia            
Borrelia burgdorferi 38 16 23 22 24 19
Borrelia sp 4 1 3 1 - 2
Borrelia tillae 5 1 1 2 1 2
Brucella            
Brucella melitensis - - - - - 1
Brucella sp 1 - - 1 - -
Campylobacter            
Campylobacter coli 48 42 21 25 39 38
Campylobacter fetus - - - - 1 -
Campylobacter gracilis - - - 1 - -
Campylobacter helveticus 1 - - - - -
Campylobacter jejuni 284 234 229 266 258 188
Campylobacter other named 1 - 1 - - 2
Campylobacter rectus - 1 1 - - -
Campylobacter sp 984 876 751 788 1,552 845
Campylobacter upsaliensis 2 1 - - 1 1
Campylobacter ureolyticus (bacteroides corrodens) 1 - - 1 1 -
Chikungunya virus            
Chikungunya virus 1 1 2 1 - 2
Clostridium            
Clostridium perfringens 27 22 25 33 30 22
Coronavirus            
Coronavirus 4 17 9 19 9 13
SARS coronavirus - - - - - 1
SARS-CoV-2 antibody indeterminate 98 144 47 111 73 104
SARS-CoV-2 antibody void 24 13 9 6 11 32
SARS-CoV-2 coronavirus (COVID-19) 24,993 28,809 42,253 51,747 61,578 55,315
SARS-CoV-2 coronavirus (COVID-19) indeterminate 380 504 465 508 589 728
SARS-CoV-2 IgG antibody negative 332 461 270 356 366 339
SARS-CoV-2 IgG antibody positive 1,516 1,703 1,647 1,185 1,223 1,786
SARS-CoV-2 IgM antibody negative 2 2 - - - -
SARS-CoV-2 total antibody negative 409 516 442 503 475 557
SARS-CoV-2 total antibody positive 1,608 1,538 1,753 1,516 1,486 1,672
Corynebacterium            
Corynebacterium diphtheriae 4 4 10 1 3 -
Corynebacterium ulcerans 1 3 2 1 - -
Cryptosporidium            
Cryptosporidium felis 1 - - - - -
Cryptosporidium hominis 86 100 55 69 57 19
Cryptosporidium meleagridis - - 1 1 - -
Cryptosporidium parvum 56 74 36 49 44 14
Cryptosporidium sp 72 69 53 51 79 72
Entamoeba            
Entamoeba histolytica 1 2 2 3 2 4
Escherichia            
Escherichia coli O 157 76 28 33 23 15 13
Flaviviruses            
Dengue virus 3 7 4 4 2 4
Giardia            
Giardia lamblia - 1 4 1 3 2
Haemophilus            
Haemophilus influenzae 41 37 30 33 45 50
Hepatitis viruses            
Hepatitis A 18 17 24 13 18 21
Hepatitis B 193 176 178 195 168 134
Hepatitis C 521 379 256 305 273 256
Hepatitis D 2 7 3 6 4 13
Hepatitis E 30 36 25 28 34 25
Influenza virus            
Influenza A 238 249 320 447 607 786
Influenza B 13 17 24 45 64 140
Influenza indeterminate - - - 1 10 4
Influenza ungrouped 4 6 10 18 16 23
Legionella            
Legionella longbeachae 1 1 - - - -
Legionella other named - 1 1 2 - -
Legionella pneumophila 10 8 14 7 8 7
Legionella sp 1 - 1 2 1 7
Listeria            
Listeria monocytogenes 5 4 3 3 4 1
Mycobacterium            
Mycobacterium tuberculosis 74 73 36 58 68 36
Neisseria            
Neisseria meningitidis 15 13 5 9 11 10
Orthopoxvirus            
Monkeypox virus 62 46 25 25 20 13
Paramyxoviruses            
Measles virus 1 1 2 1 - 1
Mumps virus 1 11 2 50 5 1
Plasmodium            
Plasmodium falciparum 2 - 2 12 9 3
Plasmodium malariae - - - 1 - -
Plasmodium ovale - 1 - 1 - -
Plasmodium vivax - - - 1 - -
Polyomavirus            
Polyomavirus BK 23 40 46 52 38 55
Polyomavirus JC 3 5 3 8 5 12
Rickettsia            
Rickettsia spotted fever - - - 1 - -
Rubella virus            
Rubella virus 1 3 1 7 2 5
Salmonella            
Other salmonellas 74 82 67 82 47 29
Salmonella agona 6 - - - 5 -
Salmonella braenderup 5 - - - - -
Salmonella chester 6 - - 6 - -
Salmonella coeln 5 - - - - -
Salmonella enteritidis 98 100 81 65 54 28
Salmonella infantis 11 5 9 8 - -
Salmonella java 6 - - - - -
Salmonella kentucky 5 - 5 6 - -
Salmonella newport - 6 8 - 6 -
Salmonella oranienburg - - 6 - - -
Salmonella saint-paul 7 - 9 - - -
Salmonella sp 15 28 28 29 74 141
Salmonella thompson - - 5 - - -
Salmonella typhi and paratyphi 20 32 24 24 10 13
Salmonella typhimurium 71 48 70 65 43 13
Salmonella virchow 8 5 7 7 - -
Slmonella enterica - - - - 5 -
Shigella            
Shigella boydii - 1 1 3 - -
Shigella dysenteriae 1 - 1 1 - -
Shigella flexneri 11 11 10 13 15 7
Shigella sonnei 22 24 16 27 16 29
Shigella sp 50 38 50 40 39 45
Streptococcus            
Streptococcus group A 53 37 47 39 57 52
Streptococcus pneumoniae 46 49 55 81 93 93
Vibrio            
Vibrio cholerae 1 1 1 - 2 -

Carbapenemase-producing Enterobacterales (CPE)*

Please note: the numbers presented here do not include specimens that have been referred to the AMRHAI Reference Unit.

Week notification received 2022/36 2022/37 2022/38 2022/39 2022/40 2022/41
Citrobacter              
Citrobacter spp IMP - - - - 1 -
  KPC - 1 1 1 - -
  NDM 1 - - 1 1 -
  OXA48 - 6 1 - 2 -
Enterobacter              
Enterobacter cloacae complex IMP 1 1 - 1 - -
  KPC 5 7 3 4 2 1
  NDM 3 - - - 4 1
  OXA48 2 2 2 1 1 -
  Other 1 - 1 - 1 -
Other enterobacter spp KPC 1 - - - 1 -
Escherichia              
Escherichia coli IMP - 1 - 2 - -
  KPC 4 4 1 7 2 5
  NDM 6 2 11 10 6 1
  OXA48 6 11 9 13 6 2
  VIM 1 - - 1 - -
  Other - 1 1 2 - -
Escherichia hermannii KPC - - - - 1 -
  NDM - - 1 - - -
Klebsiella              
Klebsiella oxytoca IMP - - 1 - 1 -
  KPC 4 11 3 1 1 -
  OXA48 - 1 1 - - -
Klebsiella pneumoniae IMP - 3 - 1 1 -
  KPC 6 4 9 5 7 4
  NDM 6 4 3 2 1 -
  OXA48 10 2 7 8 8 1
  VIM - - 1 - - -
  Other - 1 1 1 2 -
Other klebsiella spp KPC - - - - 1 -
Leclercia              
Leclercia adecarboxylata KPC - - - - 1 -
Morganella              
Morganella morganii NDM - - 1 - - -
  OXA48 - 2 - - - -
Pantoea              
Pantoea spp OXA48 1 - - - - -
Providencia              
Providencia stuartii VIM - - 1 - - -
Raoultella              
Raoultella planticola (klebsiella planticola) KPC - 1 - - - -
Shigella              
Shigella spp IMP 1 - - - - -

Other carbapenemase-producing Gram-negative organisms*

Please note: the numbers presented here do not include specimens that have been referred to the AMRHAI Reference Unit.

Week notification received 2022/36 2022/37 2022/38 2022/39 2022/40 2022/41
Acinetobacter              
Acinetobacter baumannii Other 1 - - - - -
Pseudomonas              
Pseudomonas aeruginosa NDM - - 1 - - -
  VIM - 1 1 - - 1
  Other 3 - 1 - 4 1
Pseudomonas putida group VIM - - - 1 - -
Other pseudomonas spp Other - - 1 - - -

*for all Carbapenemase-producing Gram-negative organisms, the reports are de- duplicated by first mention of organism species and resistance mechanism by person in a rolling 52-week period.