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Table 2 Genus and presumptive species identity of isolates for the curry-flavored vegetarian slices samples from PCA, RCA and MRS agar media. Confidence intervals for percentages of number of identified isolates for the most abundant identifications per sample type

From: To culture or not to culture: careful assessment of metabarcoding data is necessary when evaluating the microbiota of a modified-atmosphere-packaged vegetarian meat alternative throughout its shelf-life period

Presumptive species

Isolates from vegetarian slices (n=205)

Unsliced log ( n =19)

D0 ( n =72)

D28 (n=114)

PCA

n =10

RCA

n =5

MRS

n =4

PCA

n =38

RCA

n =23

MRS

n =11

PCA

n =34

RCA

n =44

MRS

n =36

Gram positive (n=178)

         

Bacillus licheniformis

10%

0

0

0

0

0

0

0

0

Bacillus subtilis

10%

0

0

0

0

0

0

0

0

Bacillus tequilensis

0

0

0

3%

0

0

0

0

0

Bacillus zhangzhouensis

10%

0

0

0

0

0

3%

0

0

Buttiauxella agrestis

0

0

0

0

4%

0

0

0

0

Carnobacterium divergens

0

0

0

0

0

0

21% [7-34]

9% [0-18]

19% [7-32]

Carnobacterium inhibens

0

0

0

3%

0

9%

0

0

0

Carnobacterium maltaromaticum

10% [0-29]

0

0

5% [0-12]

30% [12-49]

18% [0-41]

3% [0-9]

11% [2-21]

0

Enterococcus avium

0

0

0

0

0

0

0

0

8% [0-17]

Enterococcus devriesei

0

0

0

0

4%

0

0

0

0

Enterococcus gilvus

0

0

0

0

0

0

3%

0

3%

Enterococcus malodoratus

0

0

0

0

0

9% [0-26]

0

16% [5-27]

3% [0-8]

Enterococcus viikkiensis

0

0

0

0

0

0

3%

0

0

Erysipelothrix spp.

0

0

0

3%

0

0

0

0

0

Glutamicibacter bergerei

0

0

0

3%

0

0

0

0

0

Granulicatella adiacens

0

0

0

0

4%

0

0

0

0

Latilactobacillus sakei

10% [0-29]

100%

100%

21% [8-34]

30% [12-49]

64% [35-92]

47% [30-64]

59% [45-74]

67% [51-82]

Leucobacter luti

0

0

0

3%

0

0

0

0

0

Leuconostoc carnosum

10% [0-29]

0

0

0

0

0

0

0

0

Micrococcus luteus

0

0

0

0

0

0

3%

0

0

Paenibacillus polymyxa

0

0

0

0

0

0

3%

0

0

Paenibacillus taohuashanense

10%

0

0

0

0

0

0

0

0

Staphylococcus hominis

10%

0

0

0

0

0

0

0

0

Staphylococcus saprophyticus

10%

0

0

11%

0

0

0

0

0

Vagococcus fluvialis

10%

0

0

0

0

0

0

0

0

Vagococcus silagei

0

0

0

0

0

0

9% [0-18]

5% [0-11]

0

Gram negative (n=27)

         

Acinetobacter albensis

0

0

0

5%

0

0

0

0

0

Comamonas jiangduensis

0

0

0

3%

0

0

0

0

0

Haemophilus piscium

0

0

0

3%

4%

0

0

0

0

Morganella psychrotolerans

0

0

0

0

4%

0

0

0

0

Providencia burhodogranariea

0

0

0

3%

0

0

0

0

0

Providencia rustigianii

0

0

0

0

4%

0

0

0

0

Pseudomonas bubulae

0

0

0

3%

0

0

0

0

0

Pseudomonas caeni

0

0

0

3%

0

0

0

0

0

Pseudomonas versuta

0

0

0

3%

0

0

3%

0

0

Psychrobacter maritimus

0

0

0

11% [1-20]

0

0

0

0

0

Ralstonia mannitolilytica

0

0

0

8%

0

0

0

0

0

Serratia myotis

0

0

0

11% [1-20]

13% [0-27]

0

0

0

0

Stenotrophomonas rhizophila

0

0

0

0

0

0

3%

0

0