Network-based gut microbiome analysis in dogs

Figures & data

Figure 1. Volcano plot of the significative taxa and modules on factor Diet after the ANCOM analysis.

Figure 2. A graphic view of the gut microbiome network resulted from SCNIC analysis; highlighted with different colours are bacteria from significative modules for factor Diet after ANCOM analysis.

Table 1. Taxa belonging to modules significative to factor Diet at the ANCOM analysis.

Colour	Module n.	Taxa
Light blue	Module 3	Clostridium baratii; g_Clostridium
Orange	Module 5	g_Bacteroides; o_Bacteroidales; g_Barnesiella
Blue	Module 6	Eubacterium biforme; Catenibacterium mitsuokai; g_Ruminococcus
Pink	Module 7	Macellibacteroides fermentans; Sporobacter termitidis; o_Bacteroidales
Green	Module 8	Bacteroides plebeius; Prevotella copri
Magenta	Module 9	Lacticigenium naphtae; Leuconostoc fallax; Lactobacillus paraplantarum
Red	Module 10	g_Collinsella; g_Slackia
Light green	Module 11	g_Odoribacter; Barnesiella intestinihominis
Dark green	Module 12	Lactobacillus hamsteri; f_Lactobacillaceae
Yellow	Module 15	Clostridium saccharogumia; f_Erysipelotrichaeae, g_Clostridium
Ocher	Module 18	o_Clostridiales

Table 2. Results of the Kruskal-Wallis non parametric test applied to the sum of RAs of the taxa belonging to significative modules to factor Diet after ANCOM analysis.

	Base		Home		Kibble		Moist		Sig of
	Mean	SD	Mean	SD	Mean	SD	Mean	SD	p-value
Module 15	2.2^a	5.3	14.9^c	12.1	8.4^b	12.0	5.6^a	13.2	<0.0001
Module 10	2.3^a	4.4	7.5^c	5.1	2.1^a	2.7	4.3^b	5.1	<0.0001
Module 9	3.1^b	5.3	0.1^a	0.2	0.2^a	2.6	0.3^a	2.7	<0.0001
Module 8	22.0^ab	23.4	15.5^a	24.1	52.8^b	69.7	19.2^a	37.7	<0.0001
Module 3	90.1^b	87.2	72.2^b	95.9	13.2^a	40.8	92.7^b	71.5	<0.0001
Module 6	10.8^a	22.4	27.9^bc	30.4	50.8^c	67.6	21.9^b	27.2	<0.0001
Module 5	18.0^b	20.3	2.9^a	5.1	5.0^a	9.1	8.6^b	9.0	<0.0001
Module 7	3.2^bc	5.7	0.5^a	1.5	2.9^b	6.7	5.3^c	7.5	<0.0001
Module 11	0.4^a	0.9	0.1^a	0.5	0.3^a	1.0	1.2^b	1.7	<0.0001
Module 12	5.1	16.5	3.1	8.5	23.9	57.4	1.1	3.3	N.S.
Module 18	1.9^a	3.1	3.4^ab	5.6	6.1^b	7.9	11.2^c	11.3	<0.0001

^a,b,c = on the same row denotes differences between means for p-value < 0.05. N.S. = not significative

Figure 3. Volcano plot of the significative taxa and modules on factor Sex after the ANCOM analysis.

Figure 4. A graphic view of the gut microbiome network resulted from SCNIC analysis; highlighted with different colours are bacteria from significative modules for factor Sex after ANCOM analysis.

Table 3. Taxa belonging to modules significative to factor Sex at the ANCOM analysis.

Colour	Module n.	Taxa
Orange	Module 5	g_Bacteroides; o_Bacteroidales; g_Barnesiella
Blue	Module 6	Eubacterium biforme; Catenibacterium mitsuokai; g_Ruminococcus
Pink	Module 7	Macellibacteroides fermentans; Sporobacter termitidis; o_Bacteroidales
Red	Module 10	g_Collinsella; g_Slackia
Light Green	Module 11	g_Odoribacter; Barnesiella intestinihominis
Lilac	Module 1	Lactonifactor longoviformis; Dorea longicatena; f_Lachnospiraceae; f_Peptostreptococcaceae; Ruminococcus lactaris
Yellow	Module 15	Clostridium saccharogumia; f_Erysipelotrichaeae, g_Clostridium
Salmon	Module 2	Bifidobacterium breve; g_Pseudoramibacter_Eubacterium; f_S24-7
Violet	Module 14	g_Peptostreptococcus; g_Allobaculum

Table 4. Results of the Kruskal-Wallis non-parametric test applied to the sum of RAs of the taxa belonging to significative modules to factor Sex after ANCOM analysis.

	F		FC		M		MC		Sig of
	Mean	SD	Mean	SD	Mean	SD	Mean	SD	p-value
Module 15	5.9^a	11.0	9.3^bc	12.2	8.7^ab	16.7	8.6^c	8.0	< 0.0001
Module 10	2.8^a	4.2	4.9^b	4.9	2.4^a	3.6	4.3^b	4.5	< 0.0001
Module 6	20.5^a	27.0	37.9^bc	32.7	34.2^ab	80.7	58.9^c	53.1	< 0.0001
Module 5	11.4^c	12.7	5.2^ab	10.3	6.1^b	11.2	3.3^a	10.1	< 0.0001
Module 7	5.9^c	8.6	0.3^ab	0.6	2.5^b	4.4	0.5^a	2.4	< 0.0001
Module 11	1.0^c	1.7	0.1^ab	0.5	0.4^b	0.8	0.0^a	0.0	< 0.0001
Module 1	282.0^a	126.7	455.9^bc	145.8	372.4^b	191.3	503.0^c	153.1	< 0.0001
Module 2	5.7^b	14.1	0.2^a	0.9	2.3^a	8.5	1.3^a	6.3	< 0.0001
Module 14	0.6^b	2.3	0.0^a	0.0	0.4^b	2.2	0.0^a	0.0	0.005

F = whole female subjects; FC = spayed females subjects; M = whole male subjects; MC = neutered male subjects.

^a,b,c = on the same row denotes differences between means for p-value < 0.05. N.S. = not significative

Data availability statement

The authors confirm that the data supporting the findings of this study are available within the supplementary materials of the article.