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Table 1 This table contains data pertaining to each canine enrolled in the study with corresponding details of capsule and paired fecal samples collected from each canine

From: Noninvasive sampling of the small intestinal chyme for microbiome, metabolome and antimicrobial resistance genes in dogs, a proof of concept

Canine

Capsule sample

Paired feces samples

Canine#

Body Weight (kg)

Sex

Diet

Capsule #

Internal Transit Time (hr:mm)

Sample Weight (mg)

DNA Conc. (ng/ul)

Analysis Method

Sample Included in final Analysis? (Y/N); Reason

DNA Conc. (ng/ul)

Analysis method

Sample Included in final Analysis? (Y/N); Reason

1

8.5

FS

Royal Canin Hypoallergenic Hydrolyzed protein

1

29:93

94.1

OOR

16S sequencing

AMRG

Y

5.58

16S sequencing

AMRG

Y

2

29:93

18.2

 

Metabolome

N; Low post-dilution volume

 

Metabolome

N; Paired capsule sample removed from analysis

2

13.0

MC

Royal Canin Hypoallergenic Hydrolyzed protein

1

30:28

105.8

OOR

16S sequencing AMRG

Y; Possible contamination (not seem on 16S analysis)

7.92

16S sequencing

AMRG

Y

2

30:28

75.2

OOR

16S sequencing

AMRG

N; higher weight capsule was used in final analysis

3

9.6

FS

Royal Canin Dental

1

47:30

71.0

 

Metabolome

Y

 

Metabolome

Y

2

47:30

74.4

0.011

16S sequencing

AMRG

Y

6.06

16S sequencing

AMRG

Y

4

10.4

FS

Purina Veterinary Diets Essential Care Dry + Science Diet Beef & Barley Entree Canned

1

30:30

15.0

OOR

16S sequencing

AMRG

N: higher weight capsule was used in final analysis

7.14

16S sequencing

AMRG

Y

2

30:30

49.0

0.037

16S sequencing

AMRG

Y; Possible contamination (not seem on 16S analysis)

5

11.5

MC

Royal Canin Dental

1

27:82

72.4

0.0682

16S sequencing

AMRG

Y

7.4

16S sequencing

AMRG

Y

2

27:82

66.0

 

Metabolome

Y

 

Metabolome

Y

6

11.4

FS

Royal Canin Dental

1

23:83

42.9

 

Metabolome

Y

 

Metabolome

Y

2

23:83

87.3

0.0102

16S sequencing

AMRG

Y

6.92

16S sequencing

AMRG

Y

7

8.2

FS

Royal Canin Satiety

1

47:33

108.8

0.0334

16S sequencing

AMRG

Y

5.68

16S sequencing

AMRG

Y

2

47:33

77.6

  

N; Loss of sample

8*

11.0

MC

Royal Canin Dental

1

29:85

12.6

OOR

16S sequencing

AMRG

Y

7.14

16S sequencing

AMRG

Y

2

29:85

17.6

OOR

16S sequencing

AMRG

N; Possible contamination and low number of reads

7.24

16S sequencing

AMRG

N

9^

10.0

FS

Royal Canin Dental

1

26:40

92.2

OOR

16S sequencing

AMRG

N; Removed from analysis due to clustering with fecal sample

7.66

16S sequencing

AMRG

N; Paired capsule sample removed from analysis

2

29:48

72.8

 

16S sequencing

AMRG

N; Loss of sample

 

16S sequencing

AMRG

N; Paired capsule sample lost

10#

8.8

FS

Royal Canin Dental

1

71:38

78.6

 

Metabolome

Y

 

Metabolome

Y

2

77:88

93.1

0.0332

16S sequencing

AMRG

Y

5.84

16S sequencing

AMRG

Y

11

8.6

FS

Royal Canin Dental

1

26:37

61.8

 

Metabolome

Y

 

Metabolome

Y

2

26:37

77.5

0.0114

16S sequencing

AMRG

Y

7.08

16S sequencing

AMRG

Y

  1. Each canine was randomly designated a number at the beginning of the study for sample and analysis tracking. The sex of each dog is listed as either Female-Spayed (FS) or Male-Castrated (MC). Data pertaining to capsule and paired fecal samples include the internal transit time in hours of the capsule which tracked the time from capsule ingestion to excretion. The capsule sample weight refers to the weight of intestinal chyme (in mg) collected within the capsule. The DNA concentration in both capsule and fecal samples are recorded in ng/ml, where “OOR” refers to an Out of Range–too low (< 0.0100 ng/ul) reading on the Qubit 4 Fluorometer used to quantify the concentration. The analysis method that each capsule and paired fecal samples were designated to is described as either 16S (16S rRNA Sequencing) and antimicrobial resistance gene (AMRG) or Metabolome (untargeted HILIC Liquid Chromatography—Mass Spectrometry metabolomics). *Was seen chewing on both meatballs. ^capsule 1 was found alone in the rectum and was manually removed. #Hadn’t defecated the 2nd capsule by the 72 h mark and had 2 view abdominal radiographs taken (Fig. 1)
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Animal Microbiome

ISSN: 2524-4671