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Table 1 Description of post-mortem tissue samples collected at RVLs

From: Illumina MiSeq 16S amplicon sequence analysis of bovine respiratory disease associated bacteria in lung and mediastinal lymph node tissue

Calf ID Tissue types collected Preservation method Age (months) Sex Breed County of farm of origin RVL location Lesions observed Histology RVL diagnosis
1 lung frozen 6 F SIX Donegal Sligo Pneumonia (BRSV suspected)
2 lung frozen 1 M FRX Donegal Sligo x Pneumonia and enteritis
3 lung frozen 12 M PTX Donegal Sligo Pneumonia - IBR and M. bovis
4 lung frozen 12 M BBX Donegal Sligo Pneumonia - IBR and M. bovis
5 lung frozen 7 M CHX Donegal Sligo Pneumonia - H. somni
6 lung frozen 6 F CHX Leitrim Sligo x Pneumonia - M. haemolytica and BPIV-3 virus
7 lung and lymph node frozen 1 F LM Sligo Sligo x Pneumonia and navel infection - M. bovis, Pseudomonas spp.
8 lung and lymph node RNALater 8 M FR Leitrim Sligo x Pneumonia - T. pyrogenes
9 lung and lymph node RNALater 0 M RBX Donegal Sligo x Pneumonia - IBR, H. somni,
T. pyrogenes
10 lung and lymph node RNALater 3.5 M FR Leitrim Sligo x Pneumonia- P. multocida andS. dublin
11 lung and lymph node RNALater 2.5 F LM Sligo Sligo x Pneumonia
12 lung and lymph node RNALater 0 F CHX Carlow Kilkenny x Pneumonia
13 lung and lymph node RNALater 3 F AAX Galway Athlone Pneumonia - M. haemolytica
14 lung and lymph node RNALater 2 F LMX Westmeath Athlone Pneumonia and bacteraemia-P. multocida
15 lung and lymph node RNALater 0 F AAX Offaly Athlone Pneumonia - IBR and necroticlaryngitis
16 lung and lymph node RNALater 0 F AAX Offaly Athlone Pneumonia and pleurisy -Pasteurella spp., IBR and BRSV
17 lung and lymph node RNALater 0 M CHX Longford Athlone Pneumonia and rotavirusenteritis
18 lung and lymph node RNALater 1 M CHX Roscommon Athlone Pneumonia and navel ill -T. pyogenes (suspected virus and Pasteurella)
19 lung and lymph node RNALater 0 M WAX Waterford Kilkenny x Pneumonia and rotavirus enteritis
20 lung and lymph node RNALater 1.5 F FR Tipperary Kilkenny Pneumonia - H. somni andM. bovis
21 lung and lymph node RNALater 3 M LM Kilkenny Kilkenny Pneumonia - H. somni andM. bovis
22 lung and lymph node RNALater 0 F CHX Kilkenny Kilkenny Pneumonia - P. multocida /H. somni bronchopneumonia
23 lung and lymph node RNALater 0 M LMX Laois Kilkenny Pneumonia - H. somni bronchopneumonia
24 lung and lymph node RNALater 3 M LMX Sligo Sligo x Pneumonia
25 lung and lymph node RNALater 2 M CH Mayo Sligo x Pneumonia - Proteus spp.
26 lung and lymph node RNALater 3 F CHX Leitrim Sligo x Pneumonia - Endocarditis, enzootic pneumonia, inhalation pneumonia
27 lung and lymph node RNALater 1.5 F LMX Sligo Sligo x Pneumonia - IBR
28 lung and lymph node RNALater 1.5 F AAX Sligo Sligo x Pneumonia - IBR and Proteus spp.
29 lung and lymph node RNALater 12 M CHX Donegal Sligo Pneumonia - (possible IBR) and meningitis
30 lung and lymph node RNALater 1 M AA Sligo Sligo x Pneumonia - M. bovis
31 lung and lymph node RNALater 2.5 F LMX Donegal Sligo x Pneumonia - M. bovis
32 lung and lymph node RNALater 3 F LMX Kilkenny Kilkenny Pneumonia - interstitial pneumonia
33 lung and lymph node RNALater 2.5 M FR Laois Kilkenny x Pneumonia - P. multocida
34 lung and lymph node RNALater 5 M AAX Kilkenny Kilkenny Pneumonia - P. multocida, T. pyrogenes chronic bronchopneumonia
35 lung and lymph node RNALater 4.5 F LMX Sligo Sligo Pneumonia - Pasteurellosis
36 lung and lymph node RNALater 1 M CHX Longford Athlone Pneumonia - suppurative bronchial pneumonia.
37 lung and lymph node RNALater 1.5 M CHX Galway Athlone Pneumonia - M. haemolytica
38 lung and lymph node RNALater 3.5 F AAX Offaly Athlone Pneumonia - H. somni, M. bovis, M. haemolytica, P. multocida, T. pyogenes
  1. Lesions were defined as macroscopic consolidation or abscessation of lung tissue.
  2. M male, F female, AA Aberdeen Angus, AAX Aberdeen Angus cross, BBX Belgium Blue cross, CH Charolais, CHX Charolais cross, FR Friesian, FRX Friesian cross, LM Limousin, LMX Limousin cross, PTX Parthenaise cross, RBX Rotbunt cross, SIX simmental cross, WAX wagyu cross, = performed and confirmed bovine respiratory disease, x = not performed, H. somni = Histophilus somni, M. bovis = Mycoplasma bovis, M. haemolytica = Mannheimia haemolytica, P. multocida = Pasteurella multocida, S. dublin = Salmonella dublin, T. pyrogenes = Trueperella pyrogenes, BRSV = bovine respiratory syncytial virus, IBR = infectious bovine rhinotracheitis, BPIV-3 = bovine parainfluenza 3 virus.