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. 2019 Jul 4;9:9718. doi: 10.1038/s41598-019-46142-7

Table 2.

Characteristics of the 35 datasets selected for data extraction.

Datasets Variation factor studied by authors Factor selected for data extraction Milk fraction class Lactation stage class Country Breed Sampling Protein isolation Protein identificationa Ref
1 lactation stage 12 and 24 h post-partum Exosomes Colostrum Australia Holstein-Friesian Fresh Density gradient ultracentrifugation nanoLC-MS/MS 15
2 lactation stage 48 h post-partum Exosomes Colostrum Australia Holstein-Friesian Fresh Density gradient ultracentrifugation nanoLC-MS/MS 15
3 lactation stage 72 h post-partum Exosomes Colostrum Australia Holstein-Friesian Fresh Density gradient ultracentrifugation nanoLC-MS/MS 15
4 milk maturation 0 to 5 d post-partum Exosomes Colostrum China Holstein Fresh Density gradient ultracentrifugation iTRAQ labelling, SCX, nano-LC-MS/MS 39
5 lactation stage 1 d post-partum MFGM Colostrum USA Holstein Fresh Centrifugation, washing iTRAQ labelling, SCX, nano-LC-MS/MS 22
6 milk characterization 7 d post-partum MFGM Early lactation USA Holstein Fresh Centrifugation, washing iTRAQ labelling, SCX, nano-LC-MS/MS 22
7 lactation stage dry period length MFGM Early lactation not reported Holstein-Friesian Snap-frozen (−20 °C) Centrifugation, washing FASP, dimethyl labelling, LC-LTQ-Orbitrap/MS 10
8 breed Holstein MFGM Early lactation China Holstein Fresh Centrifugation, washing LC-MS/MS 40
9 milk maturation 48 h post-partum Skimmed milk Colostrum Brazil Holstein Fresh Acidification, centrifugation, major protein depletion 2D Maldi-TOF/TOF-MS 42
10 milk maturation 72 h post-partum Skimmed milk Colostrum Brazil Holstein Fresh Acidification, centrifugation, major protein depletion 2D Maldi-TOF/TOF-MS 42
11 milk characterization 1 d post-partum Skimmed milk Colostrum Denmark Holstein-Friesian Snap-frozen (−80 °C) Centrifugation 2D LC-MS/MS 41
12 lactation stage 1 d post-partum Skimmed milk Colostrum Denmark Holstein-Friesian Fresh Centrifugation 2D LC-MS/MS 17
13 lactation stage 10 d post-partum Skimmed milk Early lactation Denmark Holstein-Friesian Fresh Centrifugation 2D LC-MS/MS 17
14 milk characterization milk fractionation Skimmed milk Early lactation Denmark Holstein-Friesian Fresh Centrifugation 2D LC-MS/MS 13
15 diet low RDP:RUPb ratio Skimmed milk Peak lactation USA Holstein Fresh, bronopol and natamycin addition, snap frozen (−80 °C) Centrifugation, sonication HPLC 45
16 diet high RDP:RUPb ratio Skimmed milk Peak lactation USA Holstein Fresh, bronopol and natamycin addition, snap frozen (−80 °C) Centrifugation, sonication HPLC 45
17 type, processing of diet corn-grain based diet Skimmed milk Mid-lactation China Holstein Fresh Centrifugation 2D Maldi-TOF/TOF-MS 50
18 mastitis 3 h post-challenge by Escherichia coli Skimmed milk Mid-lactation Denmark Holstein-Friesian Filtered and snap frozen (−20 °C) Acidification, centrifugation iTRAQ labelling, SCX, nano-LC-MS/MS 48
19 breed Holstein-Friesian Skimmed milk Mid-lactation Australia Holstein-Friesian Bulk milk and snap frozen (−80 °C) Centrifugation Nano LC-ESI-MS/MS 51
20 breed Jersey Skimmed milk Mid-lactation Australia Jersey Bulk milk and snap frozen (−80 °C) Centrifugation Nano LC-ESI-MS/MS 51
21 mastitis healthy Skimmed milk Mid-lactation Spain Holstein-Friesian Snap frozen (−80 °C) Centrifugation Maldi-MS/MS 49
22 mastitis healthy Skimmed milk Mid-lactation USA Holstein Fresh Centrifugation 2D Maldi-TOF/TOF-PSD 47
23 lactation stage 1 d post-partum Whey Colostrum Denmark Holstein-Friesian Snap-frozen (−80 °C) Centrifugation 2D LC-MS/MS 41
24 lactation stage 0 to 5 d post-partum Whey Colostrum China Holstein Fresh Centrifugation iTRAQ labelling, SCX, LC-MS/MS 43
25 lactation stage calving day Whey Colostrum Belgium Holstein-Friesian Snap frozen (−20 °C) Ultracentrifugation FASP, dimethyl labelling, LC-LTQ-Orbitrap/MS 44
26 mammary gland involution 3 d post drying-off Whey Drying-off New Zealand Holstein-Friesian Fresh Centrifugation Gel electrophoresis LC-MS/MS 52
27 mammary gland involution 8 d post drying-off Whey Drying-off New Zealand Holstein-Friesian Fresh Centrifugation Gel electrophoresis LC-MS/MS 52
28 milk characterization milk fractionation Whey Early lactation Denmark Holstein-Friesian Fresh Centrifugation 2D LC-MS/MS 13
29 lactation stage 9 d post-partum Whey Early lactation Belgium Holstein-Friesian Snap frozen (−20 °C) Ultracentrifugation FASP, dimethyl labelling, LC-LTQ-Orbitrap/MS 44
30 breed Holstein Whey Peak lactation USA Holstein Fresh, bronopol and natamycin addition, snap frozen (−80 °C) Centrifugation, acidification, ultracentrifugation, major proteins depletion LC-MS/MS 46
31 breed Jersey Whey Peak lactation USA Holstein Fresh, bronopol and natamycin addition, snap frozen (−80 °C) Centrifugation, acidification, ultracentrifugation, major proteins depletion LC-MS/MS 46
32 diet low RDP:RUPb ratio Whey Peak lactation USA Holstein Fresh, bronopol and natamycin addition, snap frozen (−80 °C) Centrifugation, acidification, ultracentrifugation, major proteins depletion LC-MS/MS 45
33 diet high RDP:RUPb ratio Whey Peak lactation USA Holstein Fresh, bronopol and natamycin addition, snap frozen (−80 °C) Centrifugation, acidification, ultracentrifugation, major proteins depletion LC-MS/MS 45
34 mammary gland involution full lactation Whey Mid-lactation New Zealand Holstein-Friesian Fresh Centrifugation Gel electrophoresis LC-MS/MS 52
35 mastitis 0 h post-challenge by Streptococcus uberis Whey Mid-lactation United Kingdom not reported Frozen Centrifugation LC-MS/MS 53

aLC-MS/MS: Liquid chromatography coupled with tandem mass spectrometry

iTRAQ: Isobaric tags for relative and absolute quantitation

SCX column: strong cation exchange column

FASP: Filter-aided sample preparation

LTQ-Orbitrap/MS: linear ion trap quadrupole-Orbitrap-mass spectrometry

Maldi-TOF/TOF: matrix-assisted laser desorption/ionization (Maldi) time-of-flight/time-of-flight (TOF/TOF)

PSD: Post-source decay

bRDP: dietary rumen degradable protein; RUP: rumen undegradable protein.