Skip to main content

Table 1 Identification of the bacterial isolates based on 16 s rRNA gene sequence

From: Contrasting diversity of vaginal lactobacilli among the females of Northeast India

Sl. No.

Accession No.

No. of sequences derived

Species identified by homology search with database

Characteristic ML clustering as seen in Additional file 6: Figure S1

1

KU184494

1

Bacillus subtilis

Clustered distinct

2

KT906577 KT906579 KT906580

3

Bifidobacterium breve

Clustered distinct

3

KR264992

1

Enterococcus avium

The four species of Enterococcus genus clustered cohesively

4

KR265008 KT906587 KU184461

39

Enterococcus faecalis

KU184462 KU184464 KU184465

KU184460 KT906572 KU184469

KU184496 KU184470 KU184471

KU184472 KT906573 KU184498

KU184474 KT589112 KT589114

KT589115 KT589124 KR265004

KT589118 KT005519 KT005522

KT589119 KT589120 KT589122

KT589125 KT589126 KT589137

KT589136 KT589128 KT589105

KT589107 KT589108 KT589109

KT589110 KU184479 KT589111

5

KP775931 KP775933

2

Enterococcus faecium

6

KU184480 KR264993 KR264996

6

Enterococcus hirae

KU184476 KU184477 KU184478

7

KT005520 KT589121

2

Escherichia coli

Clustered distinct

8

KP747671 KT597700 KP775922

3

Janthinobacterium lividum

Clustered distinct

9

KT906585

1

Kocuria kristinae

Clustered distinct

10

KT361204 KT589116 KT589117

5

Lactobacillus brevis

Clustered distinct

KT589132 KT589133

11

KU184473 KU184499 KP775929

10

Lactobacillus fermentum

Clustered distinct

KT589130 KP775934 KP775923

KT589106 KR264983 KR264984

KR264986

12

KP775927

1

Lactobacillus gallinarum

Clustered together with Lactobacillus helviticus

13

KT991842 KT991843 KU184463

6

Lactobacillus gasseri

Clustered distinct

KU184466 KP775925 KR264987

14

KT361211 KT361209 KP775926

3

Lactobacillus helveticus

Clustered together with Lactobacillus gallinarum

15

KU184500 KU184475

2

Lactobacillus ingluviei

Clustered distinct

16

KT906576 KT906578 KT906588

3

Lactobacillus jensenii

Clustered distinct

17

KT835013 KT835015 KT835018

25

Lactobacillus mucosae*

Clustered distinct and showed deep intraspecies divergence

KT835007 KT835008 KT835009

KT835010 KT835011 KT835012

KT991844 KU184467 KU184468

KU184495 KU184497 KT597696

KU184483 KU184484 KU184485

KU184486 KU184487 KU184488

KU184489 KU184490 KU184491

KR264981

18

KP775924

1

Lactobacillus parafarraginis

Clustered distinct

19

KR264991 KR264988

2

Lactobacillus reuteri

Clustered distinct

20

KT906581 KT906582 KT906583

6

Propionibacterium avidum

Clustered distinct

KT906584 KT906571 KU184493

21

KT906569

1

Staphylococcus capitis

The six species of Staphylococcus genus clustered cohesively

22

KR264994 KR264997 KR265000

3

Staphylococcus caprae

23

KR265006 KT361206 KT361207

8

Staphylococcus epidermidis

KP747672 KT589123 KT589127

KT589131 KT589135

24

KT005521

1

Staphylococcus haemolyticus

25

KT589113 KP775928 KR264995

8

Staphylococcus hominis

KR264998 KR265001 KP775932

KR264999 KR264989

26

KT906586

1

Staphylococcus kloosii

27

KT906589 KT906574 KT906575

3

Streptococcus agalactiae

Clustered distinct

28

KT835014 KT906568 KT906570

3

Streptococcus anginosus

Clustered distinct

29

KT835016 KT835017

2

Streptococcus gallolyticus

Clustered distinct

30

KR264982

1

Streptococcus infantarius

Clustered distinct

31

KT361205

1

Weissella confusa

Clustered distinct

  1. The Genbank accession number (column 2) of 16sRNA gene sequence of each of the 154 bacterial isolates and their corresponding similarity search result (column 4) (detailed in Additional file 3: Table S3) and characteristic ML clustering (column 5) (detailed in Additional file 6: Figure S1) is shown. Overall the 154 bacterial isolates were identified belonging to 31 species. Enterococcus and Staphylococcus, and two species of Lactobacillus (L. gallinarum and L. helveticus) showed cohesive intrageneric clustering in contrast to, cohesive cluster of all sequences of a particular species and distinct cluster with all other species sequences, and are shown here as bold. Lactobacillus mucosae showed deep intraspecies split and marked with asterisk (*)