Table 6 Significantly altered (increased or decreased) species observed at each anatomical site

Duodenum

Lactobacillus salivarius

21,043.166

773.255

0

Decrease

−0.9633

Lactobacillus crispatus

26,636.067

2621.188

0

Decrease

−0.9016

Lactobacillus johnsonii

1087.965

116.768

0

Decrease

−0.8927

Lactobacillus paragasseri

153.621

19.226

0

Decrease

−0.8748

Bifidobacterium animalis

21,393.561

3061.820

0

Decrease

−0.8569

Escherichia coli

142.779

20.447

0.0045

Decrease

−0.8568

Lactobacillus helveticus

37.155

6.869

0

Decrease

−0.8151

Bifidobacterium gallinarum

84.895

16.604

8.04e⁻⁰⁹

Decrease

−0.8044

Lactobacillus reuteri

7873.725

1679.717

0

Decrease

−0.7867

Gardnerella vaginalis

31.085

7.168

0

Decrease

−0.7694

Lactobacillus gallinarum

186.486

50.006

7.70e⁻¹⁵

Decrease

−0.7318

Agarivorans sp. Toyoura001

33.629

0

9.82e⁻⁰⁵

Decrease

Eradication

Ca. Paraburkholderia calva

15.977

0

0.0046

Decrease

Eradication

Chlamydia trachomatis

3.859

0

0

Decrease

Eradication

Clostridia sp UC5.1-1D1

22.984

0

0.0046

Decrease

Eradication

Clostridioides difficile

2446.530

0

0

Decrease

Eradication

Intestinibacter bartlettii

3.533

0

0.0449

Decrease

Eradication

Lactobacillus agilis

1932.350

0

0

Decrease

Eradication

Lactobacillus hominis

113.136

0

0

Decrease

Eradication

Lactobacillus psittaci

23.226

0

0

Decrease

Eradication

Lactobacillus taiwanensis

7.718

0

0

Decrease

Eradication

Lactobacillus ultunensis

3.859

0

0

Decrease

Eradication

Pseudoflavonifractor sp. An184

3.831

0

0.0449

Decrease

Eradication

Streptococcus macedonicus

36.659

0

0.0216

Decrease

Eradication

Halomonas beimenensis

3.859

13.737

0

Increase

2.5600

Pseudomonas marginalis

7.803

43.309

0

Increase

4.5506

Shewanella chilikensis

81.365

601.961

0

Increase

6.3982

Halomonas axialensis

19.294

167.753

0

Increase

7.6944

Halomonas sp. JCM 19,032

212.926

2042.185

0

Increase

8.5910

Halomonas meridiana

174.590

1812.993

0

Increase

9.3843

Halomonas sp. JCM 19,031

3.901

41.212

0

Increase

9.5639

Shewanella algae

534.688

6009.597

0

Increase

10.2395

Pseudomonas sp. KG01

11.339

130.232

0

Increase

10.4850

Pseudomonas veronii

2765.991

34,906.046

0

Increase

11.6197

Pseudomonas sp. TKP

1131.681

14,439.803

0

Increase

11.7596

Halomonas stevensii

61.936

870.978

0

Increase

13.0625

Halomonas sp. 1513

158.856

2283.586

0

Increase

13.3752

Pseudomonas sp.

3.901

76.956

0

Increase

18.7259

Halomonas chromatireducens

203.414

4045.677

0

Increase

18.8889

Halomonas boliviensis

0

9.079

0

Increase

Introduction

Jejunum

Clostridioides difficile

2630.701

13.765

0

Decrease

−0.9948

Lactobacillus salivarius

12,653.447

314.352

0

Decrease

−0.9752

Lactobacillus paragasseri

928.751

69.853

0.0067

Decrease

−0.9248

Lactobacillus helveticus

156.084

15.977

0

Decrease

−0.8976

Lactobacillus crispatus

36,478.154

9630.854

3.35e⁻¹⁴

Decrease

−0.7360

Lactobacillus gallinarum

390.921

206.510

0.0004

Decrease

−0.4717

Agarivorans sp. Toyoura001

249.521

0

0.0003

Decrease

Eradication

Bifidobacterium gallinarum

10.182

0

5.30e⁻⁰⁵

Decrease

Eradication

Chlamydia trachomatis

9.051

0

0

Decrease

Eradication

Curtobacterium sp. PhB136

4.738

0

0

Decrease

Eradication

Intestinibacter bartlettii

1.556

0

0.0046

Decrease

Eradication

Lactobacillus psittaci

255.802

0

9.82e⁻⁰⁵

Decrease

Eradication

Streptococcus macedonicus

50.920

0

0

Decrease

Eradication

Lactobacillus hamsteri

4.738

15.977

1.29e⁻⁰⁸

Increase

2.3721

Lactobacillus oris

120.946

547.410

0

Increase

3.5261

Lactobacillus vaginalis

715.005

4961.468

1.23e⁻¹⁰

Increase

5.9391

Lactobacillus coleohominis

17.771

152.119

0

Increase

7.5599

Lactobacillus frumenti

44.772

1191.867

0

Increase

25.6207

Blautia sp. An81

4.525

212.011

0

Increase

45.8504

Corynebacterium nuruki

0

51.722

0.0225

Increase

Introduction

Ruminococcus lactaris

0

22.171

0.0449

Increase

Introduction

Ileum

Lactobacillus agilis

1649.818

6.529

2.61e⁻⁰⁷

Decrease

−0.9960

Lactobacillus salivarius

23,668.295

214.878

0

Decrease

−0.9909

Clostridioides difficile

571.044

6.340

0

Decrease

−0.9889

Streptococcus macedonicus

593.510

7.163

0

Decrease

−0.9879

Escherichia coli

2985.827

206.367

8.04e⁻⁰⁹

Decrease

−0.9309

Shigella flexneri

330.087

23.150

1.23e⁻¹⁰

Decrease

−0.9299

Lactobacillus helveticus

232.948

54.550

3.06e⁻¹⁰

Decrease

−0.7658

Agarivorans sp. Toyoura001

176.291

46.799

1.45e⁻⁰⁹

Decrease

−0.7345

Lactobacillus hominis

877.530

322.551

0.0131

Decrease

−0.6324

Lactobacillus paragasseri

903.394

371.092

0.0013

Decrease

−0.5892

Lactobacillus hamsteri

10.340

5.338

2.44e⁻⁰⁵

Decrease

−0.4838

Bifidobacterium pullorum

20.590

0

0.0449

Decrease

Eradication

Curtobacterium sp. PhB136

5.170

0

0

Decrease

Eradication

Sanguibacter keddieii

2.585

0

0

Decrease

Eradication

Shigella dysenteriae

5.442

0

0.0449

Decrease

Eradication

Lactobacillus johnsonii

1491.369

3040.351

1.23e⁻¹⁰

Increase

1.0386

Lactobacillus reuteri

2938.173

6922.904

0

Increase

1.3562

Lactobacillus oris

60.589

400.865

1.23e⁻¹⁰

Increase

5.6161

Lactobacillus kitasatonis

2446.266

17,042.197

5.16e⁻⁰⁷

Increase

5.9666

Lactobacillus coleohominis

12.934

124.808

0

Increase

8.6492

Lactobacillus vaginalis

344.435

5449.077

7.70e⁻¹⁴

Increase

14.8203

Corynebacterium sp. J010B-136

5.442

90.274

2.23e⁻⁰⁷

Increase

15.5880

Lactobacillus frumenti

25.941

947.442

1.11e⁻⁰⁶

Increase

35.5225

Blautia hansenii

0

17.352

0

Increase

Introduction

Corynebacterium provencense

0

6.529

0

Increase

Introduction

Corynebacterium variabile

0

47.163

3.06e⁻¹⁰

Increase

Introduction

Halomonas chromatireducens

0

17.328

0

Increase

Introduction

Lactobacillus secaliphilus

0

5.784

0.0449

Increase

Introduction

Lactobacillus taiwanensis

0

13.058

0

Increase

Introduction

Ruminococcus sp. OM05-10BH

0

6.529

0

Increase

Introduction

Streptococcus equi

0

18.831

0.0232

Increase

Introduction

Cecum

Bifidobacterium gallinarum

7795.660

583.668

0

Decrease

−0.9251

Lactobacillus salivarius

383.137

33.494

4.24e⁻⁰⁶

Decrease

−0.9126

Alistipes putredinis

144.043

12.770

0

Decrease

−0.9113

Bifidobacterium pullorum

4713.817

530.608

0

Decrease

−0.8874

Streptococcus macedonicus

70.588

17.664

0.0068

Decrease

−0.7498

Ruminococcus sp. N15.MGS-57

24.697

8.918

0.0112

Decrease

−0.6389

Barnesiella intestinihominis

3919.930

1784.091

0.0006

Decrease

−0.5449

Shigella dysenteriae

16.465

8.105

0

Decrease

−0.5077

Ruminococcaceae sp. D16

16.911

8.640

9.70e⁻⁰⁵

Decrease

−0.4891

Lachnospiraceae sp. OF09-33XD

67.408

38.218

2.25e⁻⁰⁵

Decrease

−0.4330

Oscillospiraceae sp. VE202-24

962.770

580.671

7.70e⁻¹⁵

Decrease

−0.3969

Flavonifractor sp. An100

25.766

16.747

0.0259

Decrease

−0.3500

Blautia sp. aa 0143

41.155

28.604

5.41e⁻⁰⁵

Decrease

−0.3050

Bifidobacterium saeculare

79.899

0

0

Decrease

Eradication

Bilophila wadsworthia

16.465

0

0

Decrease

Eradication

Clostridium sp. M62/1

16.465

0

0

Decrease

Eradication

Gordonibacter urolithinfaciens

8.232

0

0

Decrease

Eradication

Staphylococcus cohnii

8.232

0

0

Decrease

Eradication

Streptococcus gallolyticus

8.232

0

0

Decrease

Eradication

Eubacterium sp. An11

2135.550

3297.052

1.64e⁻⁰⁷

Increase

0.54388855

Eubacterium ramulus

32.081

50.966

6.45e⁻⁰⁵

Increase

0.5887

Anaerostipes sp. 494a

364.093

595.732

0.0010

Increase

0.6362

Ruminococcaceae sp. AM07-15

25.766

50.241

0.0072

Increase

0.9499

Firmicutes sp AF16-15

133.334

276.899

0

Increase

1.0767

Kineothrix alysoides

23.010

52.783

0

Increase

1.2939

Blautia sp. An81

3288.129

8424.566

0

Increase

1.5621

Ruminococcus sp. 1xD21-23

5.882

15.572

0

Increase

1.6472

Ruminococcus sp. Zagget7

39.210

106.628

0

Increase

1.7194

Lactobacillus gallinarum

20.581

66.358

2.61e⁻⁰⁷

Increase

2.2243

Blautia sp. KGMB01111

14.315

50.617

3.73e⁻⁰⁵

Increase

2.5360

Acutalibacter sp. 1XD8-33

9.421

33.494

1.23e⁻¹⁰

Increase

2.5552

Lactobacillus crispatus

532.710

2060.556

0.0003

Increase

2.8681

Lactobacillus johnsonii

20.581

96.311

0

Increase

3.6797

Lactobacillus reuteri

80.809

506.430

0

Increase

5.2670

Anaerostipes hadrus

8.589

54.266

0

Increase

5.3182

Lactobacillus vaginalis

24.162

287.730

1.23e⁻¹⁰

Increase

10.9086

Anaerofustis stercorihominis

0

16.210

0

Increase

Introduction

Bacteroides sp. D22

0

23.989

0.0449

Increase

Introduction

Blautia hominis

0

8.105

0

Increase

Introduction

Blautia obeum

0

125.604

0

Increase

Introduction

Blautia sp. An249

0

16.872

2.25e⁻⁰⁵

Increase

Introduction

Clostridium sp. AM29-11AC

0

76.449

0

Increase

Introduction

Clostridium sp. OF09-36

0

19.109

0

Increase

Introduction

Firmicutes bacterium AM29-6AC

0

8.105

0

Increase

Introduction

Firmicutes bacterium AM41-5BH

0

15.572

0

Increase

Introduction

Lachnoclostridium sp. SNUG30386

0

8.105

0

Increase

Introduction

Lachnospiraceae bacterium OF09-6

0

8.105

0

Increase

Introduction

Lactobacillus coleohominis

0

8.374

0.0449

Increase

Introduction

Lactobacillus frumenti

0

7.786

0.0449

Increase

Introduction

Lactobacillus helveticus

0

16.210

0.0068

Increase

Introduction

Lactobacillus oris

0

109.678

0

Increase

Introduction

Lactobacillus paragasseri

0

23.257

0

Increase

Introduction

Lactobacillus psittaci

0

17.279

0

Increase

Introduction

Ruminococcus sp. A254.MGS-108

0

5.403

0

Increase

Introduction

Ruminococcus sp. AF17-22AC

0

22.142

0

Increase

Introduction