Comparative milk proteome analysis of Kashmiri and Jersey cattle identifies differential expression of key proteins involved in immune system regulation and milk quality

Table 1 Significantly upregulated high abundant and low abundant milk proteins in Kashmiri and Jersey cattle

	Accession No.	Protein	Gene ID	FC	P-value	FDR
Kashmiri Cattle	Significantly upregulated abundant milk proteins
	J9UHS4	Beta-casein	CSN2	2.74	0.044	0.055
	Q8HY42	CD4 antigen	CD4	2.09	0.039	0.043
	E6YCQ7	Lactoferrin	LF	2.04	0.037	0.047
	Significantly upregulated less abundant milk proteins
	Q8HYK4	Flavin-containing monooxygenase 3	FMO3	16.6	0.041	0.050
	P80195	Glycosylation-dependent cell adhesion molecule 1	GLYCAM1	7.93	0.037	0.047
	P30932	CD9 antigen	CD9	7.24	0.038	0.048
	Q9TUI9	Apelin	APLN	3.63	0.046	0.050
	Q9TTC5	Probetacellulin	BTC	2.97	0.037	0.042
	Q9TRC0	Enterotoxin-binding glycoprotein PP16K	N/A	2.91	0.038	0.048
	Q3SZR3	Alpha-1-acid glycoprotein	ORM1	2.66	0.046	0.050
	C4PU73	Serin peptidase inhibitor, clade A	LOC286871	2.53	0.039	0.046
	Q9TS52	Adipocyte differentiation-related protein	N/A	2.53	0.042	0.055
	P46201	Uterine milk protein	N/A	2.41	0.043	0.049
	Q5GN72	Alpha-1-acid glycoprotein	AGP	2.07	0.037	0.040
Jersey cattle	Significantly upregulated abundant milk proteins
	P02754	Beta-lactoglobulin	LGB	7.24	0.037	0.051
	A0A140T8A9	Kappa-casein	CSN3	4.17	0.04	0.046
	F6I8C5	Zinc finger protein 496	ZNF496	2.33	0.037	0.061
	G9G9X6	Alpha-lactalbumin	LALBA	2.11	0.038	0.041
	Significantly upregulated less abundant milk proteins
	G8FZ88	ATP synthase subunit A	N/A	4.09	0.037	0.047
	P62998	Ras-related C3 botulinum toxin substrate	RAC1	3.85	0.044	0.067
	P01888	Beta-2-microglobulin	B2M	2.85	0.039	0.041
	Q3T0T7	GTP-binding protein SAR1b	SAR1B	2.2	0.037	0.046
	Q9XSC9	Transcobalamin-2	TCN2	2.18	0.044	0.051
	Q95114	Lactadherin	MFGE8	2.11	0.039	0.049

ISSN: 1471-2164