Online-only Table 2 The samples collected from the IDEAL cattle and their uses.

From: IDEAL, the Infectious Diseases of East African Livestock project open access database and biobank

Sample Label

Sample Description

Uses

Animal Sampled

Sample Type

BCI

Bacterial Isolates from Swabs

Diagnostics

Calves

Clinical

BFI

Bacterial Isolates from Faeces

Diagnostics

Calves

Clinical

BGA

Aliquot of heparinised blood in 1.5 ml eppendorf tube

Diagnostics

Calves

Routine

BGB

Aliquot of heparinised blood in 1.5 ml eppendorf tube

Diagnostics

Calves

Routine

BGC

Aliquot of heparinised blood in 1.5 ml eppendorf tube

 

Calves

Routine

BKS

Jugular blood thick smear. Several drops of blood from 5 ml EDTA plastic tubes was used to generate two thick smears of non-peripheral (jugular) blood. A separate slide is used for each smear and they where stored without further processing (unfixed & unstained)

Diagnostics

Calves & dams

Routine

BMI

Bacterial Isolates from milk from California Mastitis Test (CMT) positive quarters

Diagnostics

Dam

Clinical

BNS

Jugular blood thin smear. Several drops of blood from 5 ml EDTA plastic tubes was used to generate two thin smears of non-peripheral (jugular) blood. A separate slide is used for each smear and they were fixed with absolute methanol for 5 minutes before storing

Diagnostics

Calves & dams

Routine

CMS

‘Clinical Miscellaneous Samples’; a heterogeneous group of samples whose collection is ‘in addition’ to the compulsory routine samples

Clinical diagnosis

Calves

Clinical

HSV

1.8 ml plastic cryotubes of jugular blood decanted from 10 ml heparinised glass tubes

Diagnostics

Calves

Clinical

MBE

Mix of jugular blood and magic buffer (5 ml: 5 ml) in 10 ml EDTA glass tubes

Host genetics

Calves & dams

Routine

MKS

Thick smear from peripheral blood collected from the marginal ear vein

Screening of blood borne protozoa

Calves

Routine

MLK

40–50 ml plastic tubes with white lead containing 40–50 ml of milk pulled from all healthy quarters (i.e. quarters presenting with no macroscopic signs of mastitis)

Nutrition studies

Dams

Routine

MNS

Thin smear from peripheral blood collected from the marginal ear vein

Manual haematology & screening of blood borne protozoa

Calves

Routine

NMB

Jugular blood thin smear for new methylene blue staining and reticulocite count

Diagnostics

Calves

Clinical

RED

Jugular blood in 5 ml EDTA plastic tubes

Automated haematology, manual PCV, screening of trypanosomes, PCR

Calves & dams

Routine

RLE

Mix of EDTA jugular blood and RNALater (500 µl: 1.3 ml) in 1.8 ml plastic cryotubes with external thread

RNA studies

Calves

Routine

SER

1.8 ml plastic cryotubes containing serum derived from centrifugation of jugular blood in 10 ml glass-made plain vacutainers

Serology screening

Calves & dams

Routine & clinical