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Fig. A1 Scatter plots depicting the relationship between bacterial abundance and environmental parameters. Scatter plots of bacterial abundance versus oxygen (a, c).

Scatter plots of bacterial abundance versus total organic carbon (TOC) (b, d). Solid lines represent the best fit of the quadratic model to the data. Dashed lines represent best fit of a linear model to the data.

166

Fig. A2 Scatter plots depicting the relationship between sediment bacterial diversity and environmental parameters. Scatter plots of bacterial diversity indices versus temperature versus (a–c, j–l). Scatter plots of bacterial diversity indices versus salinity (d–f, m–o).

Scatter plots of bacterial diversity indices versus TOC (g–i, p–r). Solid lines represent the best fit of the quadratic model to the data. Dashed lines represent the best fit of a linear model to the data.

167

Fig. A3 Pictures of undisturbed sediment cores that were retrieved from the study site at the oxic condition (Dissolved oxygen concentration (DO); 118 µM, May 2017) and (A) and the dysoxic condition (DO; 27 µM, August 2017) (B). Sediment samples were collected with a G.S. type core sampler, Ashura. (Rigosha, Japan), equipped with three polycarbonate tubes (57 cm long with 82 mm inner diameter).

168

Fig. A4 Mean rank abundance plots of the dsrA-terminal restriction fragment for the top 10 operational taxonomic units (OTUs). The y axis shows the means of relative abundance of each OTU within same oxygen groups, whereas the x axis is the ordinal rank of OTUs from most abundant to least abundant. Error bars represent standard errors.

169

Table A1 Correlation coefficients of bottom-water dissolved oxygen (DO) with the relative abundance of OTUs (continued)

NA: not applicable

OTUs Uppermost Subsurface Combined

Correlation coefficient

(r)

P value

Correlation coefficient

(r)

P value

Correlation coefficient

(r)

P value

191 0.140 0.566 -0.158 0.519 -0.048 0.775

197 -0.052 0.832 -0.518 0.023 -0.316 0.053

211 0.106 0.665 0.180 0.461 0.090 0.593

215 0.027 0.914 NA NA 0.019 0.912

225 -0.096 0.696 0.098 0.689 -0.007 0.966

231 0.227 0.349 0.227 0.349 0.221 0.183

234 0.176 0.471 0.122 0.618 0.151 0.366

241 -0.413 0.079 -0.477 0.039 -0.442 0.005

247 -0.352 0.140 -0.243 0.316 -0.282 0.087

251 0.190 0.437 -0.281 0.243 -0.034 0.842

254 0.060 0.807 0.079 0.749 0.070 0.678

255 NA NA -0.318 0.184 -0.182 0.275

258 0.059 0.810 -0.612 0.005 -0.253 0.126

263 NA NA -0.484 0.036 -0.321 0.049

267 0.140 0.568 -0.330 0.168 -0.172 0.301

270 -0.380 0.108 -0.087 0.724 -0.262 0.112

272 -0.025 0.918 0.311 0.196 0.092 0.585

279 0.330 0.168 -0.202 0.406 0.011 0.948

280 0.257 0.289 -0.292 0.224 -0.050 0.764

283 0.214 0.380 -0.036 0.884 0.032 0.848

291 0.492 0.032 -0.193 0.429 0.118 0.480

293 NA NA 0.227 0.349 0.159 0.342

297 0.027 0.914 -0.765 0.000 -0.446 0.005

307 0.343 0.151 -0.018 0.941 0.194 0.243

312 0.196 0.422 0.180 0.461 0.171 0.304

314 0.155 0.526 -0.617 0.005 -0.337 0.039

317 -0.289 0.230 -0.481 0.037 -0.387 0.016

322 NA NA -0.052 0.833 -0.035 0.834

326 0.120 0.624 -0.182 0.455 -0.049 0.772

332 0.201 0.409 0.207 0.396 0.201 0.226

170 Table A1 (continued)

NA: not applicable

OTUs Uppermost Subsurface Combined

Correlation coefficient

(r)

P value

Correlation coefficient

(r)

P value

Correlatio n coefficient

(r)

P value

335 -0.362 0.12

8

-0.336 0.160 -0.311 0.05

337 0.233 0.33 8

7

0.180 0.461 0.187 0.26

340 0.238 0.32 2

7

-0.582 0.009 -0.248 0.13

355 0.280 0.24 3

6

0.354 0.137 0.274 0.09

366 NA NA NA NA NA 6 NA

372 0.227 0.34

9

0.289 0.231 0.242 0.14

374 0.136 0.57 4

9

0.298 0.216 0.171 0.30

375 0.227 0.34 4

9

0.227 0.349 0.227 0.17

377 -0.277 0.25 0

1

-0.298 0.216 -0.237 0.15

383 NA NA 0.022 0.927 0.015 3 0.92

394 -0.348 0.14 8

5

0.180 0.461 -0.008 0.96

396 0.089 0.71 1

6

0.118 0.631 0.085 0.61

400 -0.226 0.35 2

2

0.170 0.486 -0.026 0.87

412 0.017 0.94 9

4

0.358 0.133 0.167 0.31

420 -0.361 0.12 6

9

-0.332 0.165 -0.318 0.05

426 0.322 0.17 2

9

0.125 0.610 0.240 0.14

427 0.475 0.04 7

0

-0.251 0.300 0.138 0.40

430 -0.136 0.57 8

9

0.339 0.155 -0.035 0.83

435 -0.024 0.92 4

2

0.280 0.245 0.138 0.41

440 -0.629 0.00 0

4

-0.092 0.709 -0.388 0.01

444 0.009 0.97 6

2

-0.260 0.283 -0.157 0.34

447 -0.565 0.01 7

2

-0.522 0.022 -0.536 0.00

450 NA NA 0.199 0.413 0.136 1 0.41

454 -0.203 0.40 6

5

0.288 0.232 0.093 0.57

457 0.168 0.49 7

3

0.317 0.185 0.195 0.24

459 0.276 0.25 2

3

0.298 0.215 0.232 0.16

460 -0.399 0.09 2

0

0.313 0.193 -0.001 0.99

462 0.190 0.43 4

5

0.198 0.417 0.193 0.24

463 -0.258 0.28 5

6

-0.575 0.010 -0.401 0.01

467 0.016 0.94 3

9

0.366 0.124 0.156 0.35

1

171 Table A1 (continued)

NA: not applicable

OTUs Uppermost Subsurface Combined

Correlation coefficient

(r)

P value

Correlation coefficient

(r)

P value

Correlation coefficient

(r)

P value

469 -0.172 0.481 0.316 0.187 0.045 0.791

470 0.207 0.395 0.117 0.633 0.167 0.316

472 -0.252 0.298 -0.562 0.012 -0.410 0.011

479 -0.310 0.197 0.341 0.154 -0.009 0.956

483 -0.530 0.020 0.191 0.434 -0.043 0.800

487 0.079 0.748 0.061 0.803 0.067 0.688

490 -0.058 0.814 0.264 0.274 0.011 0.950

501 -0.533 0.019 -0.315 0.189 -0.427 0.008

502 0.217 0.372 -0.639 0.003 -0.231 0.163

503 -0.145 0.554 NA NA -0.098 0.560

506 0.027 0.914 -0.430 0.066 -0.042 0.800

507 0.027 0.914 NA NA 0.019 0.912

510 -0.392 0.097 0.234 0.336 -0.060 0.721

511 0.205 0.399 -0.599 0.007 -0.355 0.029

515 0.291 0.227 0.382 0.107 0.316 0.053

519 -0.493 0.032 0.162 0.508 -0.181 0.276

523 0.461 0.047 0.376 0.113 0.417 0.009

526 -0.108 0.660 0.463 0.046 0.127 0.447

530 0.313 0.192 0.358 0.133 0.325 0.046

542 0.227 0.349 0.051 0.836 0.162 0.331

548 -0.337 0.158 0.252 0.297 -0.051 0.762

554 0.183 0.452 0.244 0.313 0.214 0.198

555 0.205 0.399 0.028 0.909 0.112 0.505

565 -0.219 0.368 0.204 0.401 -0.026 0.875

567 0.198 0.417 -0.763 0.000 -0.305 0.063

570 -0.010 0.967 0.427 0.069 0.208 0.211

579 -0.460 0.047 0.301 0.210 -0.135 0.420

582 0.210 0.388 0.257 0.289 0.221 0.182

583 0.183 0.452 0.264 0.275 0.212 0.201

586 -0.429 0.067 -0.436 0.062 -0.429 0.007

172 Table A1 (continued)

NA: not applicable

OTUs Uppermost Subsurface Combined

Correlation coefficient

(r)

P value

Correlation coefficient

(r)

P value

Correlatio n coefficient

(r)

P value

589 0.108 0.65

9

0.263 0.276 0.185 0.26

590 -0.471 0.04 6

2

0.180 0.461 -0.105 0.53

592 -0.055 0.82 2

4

-0.426 0.069 -0.230 0.16

596 -0.071 0.77 4

4

-0.481 0.037 -0.249 0.13

598 0.264 0.27 1

4

0.265 0.273 0.264 0.10

602 0.355 0.13 9

5

0.281 0.244 0.317 0.05

606 0.390 0.09 3

9

0.197 0.419 0.294 0.07

614 0.481 0.03 3

7

0.207 0.395 0.341 0.03

617 -0.381 0.10 6

8

0.215 0.376 -0.027 0.87

619 0.501 0.02 4

9

-0.099 0.686 0.196 0.23

621 0.255 0.29 8

1

-0.616 0.005 -0.185 0.26

625 0.109 0.65 7

8

0.256 0.291 0.137 0.41

629 0.438 0.06 3

0

0.321 0.180 0.380 0.01

630 NA NA 0.281 0.244 0.190 9 0.25

631 0.183 0.45 4

2

0.090 0.715 0.102 0.54

634 -0.096 0.69 2

6

0.235 0.333 0.061 0.715

637 -0.357 0.13

4

0.254 0.293 -0.206 0.214

639 NA NA 0.180 0.461 0.126 0.452

643 0.398 0.09

1

-0.290 0.229 0.086 0.607

647 -0.364 0.12

6

0.222 0.360 -0.003 0.986

648 -0.277 0.25

1

0.163 0.506 -0.004 0.979

651 -0.277 0.25

1

0.288 0.231 0.073 0.662

654 -0.099 0.68

6

-0.456 0.050 -0.269 0.103

657 -0.337 0.15

9

-0.282 0.243 -0.310 0.058

662 -0.449 0.05

4

0.274 0.257 -0.078 0.644

664 0.198 0.41

7

0.221 0.363 0.188 0.260

670 0.415 0.07

7

NA NA 0.278 0.091

672 -0.425 0.06

9

0.114 0.643 -0.130 0.435

673 -0.285 0.23

6

0.302 0.209 -0.035 0.834

676 -0.517 0.02

3

0.094 0.703 -0.183 0.27

2

173 Table A1 (continued)

NA: not applicable

OTUs Uppermost Subsurface Combined

Correlation coefficient

(r)

P value

Correlation coefficient

(r)

P value

Correlation coefficient

(r)

P value

679 NA NA -0.075 0.761 -0.051 0.759

681 0.121 0.621 -0.519 0.023 -0.188 0.259

686 -0.367 0.122 0.254 0.293 -0.120 0.473

689 0.223 0.360 0.308 0.200 0.223 0.179

692 -0.156 0.524 -0.356 0.135 -0.222 0.180

698 -0.266 0.271 -0.479 0.038 -0.329 0.043

702 0.038 0.876 -0.630 0.004 -0.256 0.121

712 -0.238 0.326 -0.331 0.166 -0.274 0.096

721 -0.123 0.615 0.217 0.373 0.055 0.743

733 -0.508 0.026 0.168 0.492 -0.202 0.225

735 0.361 0.128 0.257 0.289 0.295 0.072

741 -0.023 0.927 0.434 0.064 0.128 0.443

745 0.289 0.231 0.180 0.461 0.239 0.149

746 0.217 0.373 NA NA 0.147 0.377

754 0.111 0.652 0.363 0.126 0.231 0.163

758 0.349 0.144 -0.305 0.204 0.139 0.406

764 0.466 0.045 -0.044 0.858 0.260 0.115

775 -0.236 0.330 0.119 0.627 -0.081 0.630

780 -0.212 0.383 0.247 0.308 0.042 0.801

782 -0.306 0.203 0.312 0.193 -0.020 0.906

789 0.166 0.498 0.183 0.452 0.166 0.319

791 0.168 0.491 0.051 0.835 0.105 0.531

792 0.256 0.291 -0.801 0.000 -0.326 0.046

800 0.210 0.389 -0.425 0.070 -0.039 0.814

811 0.029 0.906 0.475 0.040 0.247 0.134

820 0.091 0.710 0.306 0.202 0.201 0.227

827 0.150 0.540 0.158 0.519 0.152 0.363

843 0.228 0.348 0.507 0.027 0.358 0.027

845 0.435 0.063 -0.401 0.089 0.236 0.154

852 0.180 0.461 NA NA 0.126 0.452

174 Table A1 (continued)

NA: not applicable

OTUs Uppermost Subsurface Combined

Correlation coefficient

(r)

P value

Correlatio n coefficient

(r)

P value

Correlatio n coefficient

(r)

P value

867 0.096 0.696 0.255 0.292 0.159 0.34

889 0.061 0.804 0.161 0.511 0.107 0 0.52

895 0.526 0.021 -0.289 0.230 0.126 4 0.45

904 0.085 0.729 0.195 0.423 0.124 0 0.45

906 0.145 0.552 -0.832 0.000 -0.360 8 0.02

927 -0.041 0.867 0.282 0.243 0.105 7 0.53

928 0.325 0.175 NA NA 0.218 2 0.18

934 -0.529 0.020 0.453 0.051 -0.101 8 0.54

947 -0.301 0.210 -0.386 0.102 -0.330 6 0.04

959 0.079 0.748 -0.497 0.031 -0.277 3 0.09

962 0.227 0.349 0.227 0.349 0.201 2 0.22

986 -0.604 0.006 0.300 0.213 -0.201 7 0.22

987 -0.121 0.621 -0.277 0.251 -0.160 5 0.33

995 0.147 0.547 0.274 0.257 0.218 8 0.18

9

175

Table A2 Phylogenetic affiliation and putative automated ribosomal intergenic spacer analysis (ARISA) fragment length of 16S rRNA sequences of clone libraries retrieved from Omura Bay sediment (continued)

a: Underline indicates overlapping ARISA fragments length with different taxonomy.

b: The putative oxygen sensitivity and function were determined by the reported physiology of closely related species.

c: Strict anaerobes are represented in bold.

1 657 -0.34 LC145654 90 Strictly anaerobic Sulfate reduction

2 657 -0.34 LC145644 96 Strictly aerobic

3 657 -0.34 LC145681 93 Aerobic

Facultatively Anaerobic

4 444 0.01 LC145669 93 Strictly anaerobic Sulfate reduction

5 444 0.01 LC145670 93 Strictly anaerobic

Sulfate reduction Mn reduction Ferm entation

6 548 -0.34 LC145652 91 Strictly anaerobic Ferm entation

7 501 -0.53 LC145695 92 Strictly anaerobic

Fe reduction Mn reduction Ferm entation

8 662 -0.45 LC145677 90 Strictly anaerobic disproportionation

of elem ental sulfur

9 662 -0.45 LC145680 94 Strictly anaerobic Sulfate reduction

10 460 -0.40 LC145685 97 Strictly anaerobic Sulfate reduction

Toluen oxy dation

11 420 -0.36 LC145651 90 Strictly anaerobic Fe reduction

12 906 0.15 LC145690 98 Strictly aerobic facultative

photoheterotroph

13 510 -0.39 LC145671 89 Strictly anaerobic Sulfate reduction

Sulfite reduction

14 510 -0.39 LC145672 89 Strictly anaerobic

Fe reduction Mn reduction Ferm entation

15 490 -0.06 LC145657 95 Strictly anaerobic Sulfate reduction

Toluen oxy dation

16 579 -0.46 LC145675 97 Strictly anaerobic

Ferm entation Sulfate reduction

Fe reduction, Nitrate reduction

17 686 -0.37 LC145647 88 Strictly anaerobic Sulfate reduction

18 686 -0.37 LC145682 87 Strictly anaerobic Sulfate reduction

19 506 0.03 LC145696 87 Strictly anaerobic

Fe reduction Mn reduction Ferm entation

20 374 0.14 LC145662 88 Strictly aerobic

21 721 -0.12 LC145684 92 Strictly aerobic

22 469 -0.17 LC145694 94 Strictly anaerobic Sulfate reduction

Toluen oxy dation

23 758 0.35 LC145687 88 Strictly anaerobic Ferm entation

24 735 0.36 LC145686 92 Strictly aerobic

25 234 0.18 LC145664 86 Strictly anaerobic Fe reduction

Mn reduction

26 811 0.03 LC145649 95 m icroaerophilly anaerobic phototrphy

27 254 0.06 LC145665 90 Aerobic Metanotrophic

28 602 0.36 LC145643 94 Aerobic

29 764 0.47 LC145688 91 Aerobic

Facultatively Anaerobic

30 523 0.46 LC145656 90 Strictly anaerobic Ferm entation

31 606 0.39 LC145676 91 Aerobic

Facultatively Anaerobic

32 643 0.40 LC145678 93 Facultatively anaerobic Fe reduction

33 643 0.40 LC145679 93 Facultatively anaerobic Fe reduction

a: Underline indicates overlapping ARISA fragm ents length with different taxonom y .

b: The putative oxy gen sensitivity and function were determ ined by the reported phy siology of closely related species.

c: Strict anaerobes are represented in bold.

Putative oxy gen sensitivityb c Clone No. OTUa

(bp)

Correlation coefficient across

DO gradient

Accession num ber

Sequence Sim ilarity (%)

Putative functionb

176 Table A2 (continued)

a: Underline indicates overlapping ARISA fragments length with different taxonomy.

b: The putative oxygen sensitivity and function were determined by the reported physiology of closely related species.

c: Strict anaerobes are represented in bold.

1 657 Proteobacteria Deltaproteobacteria Sy ntrophobacterales Therm odesulforhabdus norvegica strain A8444 Beeder et al. (1995)

2 657 Proteobacteria Gam m aproteobacteria Cellvibrionales Pseudohaliea rubra strain CM41_15a Urios et al. (2009)

3 657 Proteobacteria Gam m aproteobacteria Aerom onadales Aerom onas salm onicida subsp.

m asoucida strain NBRC 13784 Hirvelä-Koski (2005)

4 444 Proteobacteria Deltaproteobacteria Desulfobacterales Desulfobacter hy drogenophilus strain DSM 3380 Schauder et al. 1987

5 444 Proteobacteria Deltaproteobacteria Desulfurom onadales Desulfurom onas acetoxidans strain DSM 684 Pfennig and Biebl (1976) ,Roden and Lovley (1993)

6 548 Chloroflexi Anaerolineae Anaerolineales Bellilinea caldifistulae strain GOMI-1 Yam ada et al. (2007)

7 501 Acidobacteria Acidobacteria subdivision 23 Therm oanaerobaculum Therm oanaerobaculum aquaticum strain MP-01 A. Losey (2013)

8 662 Proteobacteria Deltaproteobacteria Dissulfuribacter Dissulfuribacter therm ophilus strain S69 Slobodkin er al. (2013) 9 662 Proteobacteria Deltaproteobacteria Desulfobacterales Desulfatiglans parachlorophenolica strain DS Suzuki et al. (2014)

10 460 Proteobacteria Deltaproteobacteria Desulfobacterales Desulfobacula toluolica strain Tol2 Rabus et al. (1995)

11 420 Proteobacteria Deltaproteobacteria Desulfurom onadales Desulfurom usa ferrireducens strain 102 Vandieken et al. (2006) 12 906 Proteobacteria Gam m aproteobacteria Cellvibrionales Chrom atocurvus halotolerans strain EG19 Csotony i et al. (2010) 13 510 Proteobacteria Deltaproteobacteria Desulfurom onadales Desulfobulbus alkaliphilus strain APS1 Sorokin et al. (2012)

14 510 Acidobacteria Acidobacteria subdivision 23 Therm oanaerobaculum Therm oanaerobaculum aquaticum strain MP-01 A. Losey (2013)

15 490 Proteobacteria Deltaproteobacteria Desulfobacterales Desulfobacula toluolica strain Tol2 Rabus et al. (1995)

16 579 Proteobacteria Deltaproteobacteria Desulfurom onadales Pelobacter seleniigenes strain KM Narasingarao and Ha¨

ggblom (2007)

17 686 Proteobacteria Deltaproteobacteria Desulfurom onadales Desulfurom onas thiophila strain NZ27 Finster et al. (1997) 18 686 Proteobacteria Deltaproteobacteria Desulfobacterales Desulfatibacillum alkenivorans strain PF2803 Cravo-Laureau et al. (2004)

19 506 Acidobacteria Acidobacteria subdivision 23 Therm oanaerobaculum Therm oanaerobaculum aquaticum strain MP-01 A. Losey (2013)

20 374 Firm icutes. Bacilli Bacillales Calditerricola y am am urae strain YMO722 Moriy a et al. (2011)

21 721 Bacteroidetes Bacteroidetes-Cy tophagia Cy tophagales Marivirga tractuosa strain DSM 4126 Pagani et al. (2011)

22 469 Proteobacteria Deltaproteobacteria Desulfobacterales Desulfobacula toluolica strain Tol2 Rabus et al. (1995)

23 758 Chlorobi Chlorobi-Ignavibacteria Ignavibacteriales Ignavibacterium album strain JCM 16511 Lino et al. (2010)

24 735 Bacteroidetes Bacteroidetes-Cy tophagia Cy tophagales Marivirga tractuosa strain DSM 4126 Nedashkovskay a et al.(2010) 25 234 Proteobacteria Deltaproteobacteria Desulfurom onadales Geobacter bem idj iensis strain Bem Nevin et al. (2005)

26 811 Proteobacteria Gam m aproteobacteria Chrom atiales Marichrom atium gracile strain DSM 203 Thar and Kühl (2001)

27 254 Proteobacteria Gam m aproteobacteria Methy lococcales Methy lohalobius crim eensis strain 10Ki Hey er et al. (2005) 28 602 Proteobacteria Gam m aproteobacteria Oceanospirillales Neptuniibacter halophilus strain antisso-13 Chen et al. (2012) 29 764 Proteobacteria Gam m aproteobacteria Aerom onadales Aerom onas salm onicida subsp.

m asoucida strain NBRC 13784 Hirvelä-Koski (2005)

30 523 Chloroflexi Anaerolineae Anaerolineales Therm om arinilinea lacunifontana strain SW7 Nunoura et al. (2013)

31 606 Proteobacteria Gam m aproteobacteria Aerom onadales Aerom onas salm onicida subsp.

m asoucida strain NBRC 13784 Hirvelä-Koski (2005)

32 643 Proteobacteria Gam m aproteobacteria Alterom onadales Paraferrim onas sedim enticola strain NBRC 101628 Khan and Haray am a (2007) 33 643 Proteobacteria Gam m aproteobacteria Alterom onadales Paraferrim onas sedim enticola strain NBRC 101628 Khan and Haray am a (2007) a: Underline indicates overlapping ARISA fragm ents length with different taxonom y .

b: The putative oxy gen sensitivity and function were determ ined by the reported phy siology of closely related species.

c: Strict anaerobes are represented in bold.

Referenceb

Clone No. OTUa

(bp)

Phy lum Class Order Nearest neighbor (species) Strain

177 Reference for Table A2

1. Beeder, J., T. Torsvik, and T. Lien. 1995. Thermodesulforhabdus

norvegicus gen. nov., sp. nov., a novel thermophilic

sulfate-reducing bacterium from oil field water. Archives of Microbiology

164: 331–336. doi:10.1007/BF02529979

2. Chen, M. H., S. Y. Sheu, T. F. Chiu, and W. M. Chen. 2012.

Neptuniibacter halophilus sp. nov., isolated from a salt pan, and

emended description of the genus Neptuniibacter. International

Journal of Systematic and Evolutionary Microbiology 62: 1104–

1109. doi:10.1099/ijs.0.030379-0

3. Cravo-Laureau, C., R. Matheron, C. Joulian, J.-L. Cayol, and A.

Hirschler-Réa. 2004. Desulfatibacillum alkenivorans sp. nov., a

novel n-alkene-degrading, sulfate-reducing bacterium, and

emended description of the genus Desulfatibacillum.

International journal of systematic and evolutionary

microbiology 54: 1639–42. doi:10.1099/ijs.0.63104-0

4. Csotonyi, J. T., E. Stackebrandt, J. Swiderski, P. Schumann, and

V. Yurkov. 2011. Chromocurvus halotolerans gen. nov., sp. nov.,

178

a gammaproteobacterial obligately aerobic anoxygenic

phototroph, isolated from a Canadian hypersaline spring.

Archives of Microbiology 193: 573–582.

doi:10.1007/s00203-011-0698-5

5. Finster, K., J. D. Coates, W. Liesack, and N. Pfennig. 1997.

Desulfuromonas thiophila sp. nov., a new obligately

sulfur-reducing bacterium from anoxic freshwater sediment.

International journal of systematic bacteriology 47: 754–758.

doi:10.1099/00207713-47-3-754

6. Heyer, J., U. Berger, M. Hardt, and P. F. Dunfield. 2005.

Methylohalobius crimeensis gen. nov., sp. nov., a moderately

halophilic, methanotrophic bacterium isolated from hypersaline

lakes of Crimea. International Journal of Systematic and

Evolutionary Microbiology 55: 1817–1826.

doi:10.1099/ijs.0.63213-0

7. Hirvelä-koski, V. 2005. Fish Pathogens Aeromonas salmonicida

and Renibacterium salmoninarum: Diagnostic and

179

epidemiological aspects. Faculty of Veterinary Medicine;

University of Helsinki (Academic Dissertation).

8. Iino, T., K. Mori, Y. Uchino, T. Nakagawa, S. Harayama, and K.

-i. Suzuk-i. 2010. Ignavibacterium album gen. nov., sp. nov., a

moderately thermophilic anaerobic bacterium isolated from

microbial mats at a terrestrial hot spring and proposal of

Ignavibacteria classis nov., for a novel lineage at the periphery of

green sulfur bacteria. International journal of systematic and

evolutionary microbiology 60: 1376–1382.

doi:10.1099/ijs.0.012484-0

9. Khan, S. T., and S. Harayama. 2007. Paraferrimonas

sedimenticola gen. nov., sp. nov., a marine bacterium of the

family Ferrimonadaceae. International journal of systematic and

evolutionary microbiology 57: 1493–8. doi:10.1099/ijs.0.64529-0

10. Losey, N. A., B. S. Stevenson, H.-J. Busse, J. S. S. Damste, W. I.

C. Rijpstra, S. Rudd, and P. A. Lawson. 2013.

Thermoanaerobaculum aquaticum gen. nov., sp. nov., the first

cultivated member of Acidobacteria subdivision 23, isolated from

180

a hot spring. International journal of systematic and

evolutionary microbiology 63: 4149–4157.

doi:10.1099/ijs.0.051425-0

11. Moriya, T., T. Hikota, I. Yumoto, T. Ito, Y. Terui, A. Yamagishi,

and T. Oshima. 2011. Calditerricola satsumensis gen. nov., sp.

nov. and Calditerricola yamamurae sp. nov., extreme

thermophiles isolated from a high-temperature compost.

International journal of systematic and evolutionary

microbiology 61: 631–636. doi:10.1099/ijs.0.018416-0

12. Narasingarao, P., and M. M. Haggblom. 2007. Pelobacter

seleniigenes sp. nov., a selenate-respiring bacterium.

International journal of systematic and evolutionary

microbiology 57: 1937–1942. doi:10.1099/ijs.0.64980-0

13. Nedashkovskaya, O. I., M. Vancanneyt, S. B. Kim, and K. S. Bae.

2010. Reclassification of Flexibacter tractuosus (Lewin 1969)

Leadbetter 1974 and “Microscilla sericea” Lewin 1969 in the genus Marivirga gen. nov. as Marivirga tractuosa comb. nov. and

Marivirga sericea nom. rev., comb. nov. International journal of

181

systematic and evolutionary microbiology 60: 1858–1863.

doi:10.1099/ijs.0.016121-0

14. Nevin, K. P., D. E. Holmes, T. L. Woodard, E. S. Hinlein, D. W.

Ostendorf, and D. R. Lovley. 2005. Geobacter bemidjiensis sp.

nov. and Geobacter psychrophilus sp. nov., two novel

Fe(III)-reducing subsurface isolates. International Journal of

Systematic and Evolutionary Microbiology 55: 1667–1674.

doi:10.1099/ijs.0.63417-0

15. Nunoura, T., M. Hirai, M. Miyazaki, and others. 2013. Isolation

and characterization of a thermophilic, obligately anaerobic and

heterotrophic marine Chloroflexi bacterium from a

Chloroflexi-dominated microbial community associated with a Japanese

shallow hydrothermal system, and proposal for

Thermomarinilin. Microbes and environments 28: 228–35.

doi:10.1264/jsme2.ME12193

16. Pagani, I., O. Chertkov, A. Lapidus, and others. 2011. Complete

genome sequence of Marivirga tractuosa type strain (H-43).

182

Standards in genomic sciences 4: 154–62.

doi:10.4056/sigs.1623941

17. Pfennig, N., and H. Biebl. 1976. Desulfuromonas acetoxidans

gen. nov. and sp. nov., a new anaerobic, sulfur-reducing,

acetate-oxidizing bacterium. Archives of Microbiology 110: 3–12.

doi:10.1007/BF00416962

18. Rabus, R., and F. Widdel. 1995. Conversion studies with

substrate analogues of toluene in a sulfate-reducing bacterium,

strain Tol2. Archives of Microbiology 164: 448–451.

doi:10.1007/BF02529744

19. Roden, E. E., and D. R. Lovley. 1993. Dissimilatory Fe(III)

Reduction by the Marine Microorganism Desulfuromonas

acetoxidans. Applied and environmental microbiology 59: 734–

42.

20. Schauder, R., F. Widdel, and G. Fuchs. 1987. Carbon

assimilation pathways in sulfate-reducing bacteria II. Enzymes

of a reductive citric acid cycle in the autotrophic Desulfobacter

183

hydrogenophilus. Archives of Microbiology 148: 218–225.

doi:10.1007/BF00414815

21. Slobodkin, A. I., A.-L. Reysenbach, G. B. Slobodkina, T. V.

Kolganova, N. A. Kostrikina, and E. A. Bonch-Osmolovskaya.

2013. Dissulfuribacter thermophilus gen. nov., sp. nov., a

thermophilic, autotrophic, sulfur-disproportionating, deeply

branching deltaproteobacterium from a deep-sea hydrothermal

vent. International journal of systematic and evolutionary

microbiology 63: 1967–1971. doi:10.1099/ijs.0.046938-0

22. Sorokin, D. Y., T. P. Tourova, A. N. Panteleeva, and G. Muyzer.

2012. Desulfonatronobacter acidivorans gen. nov., sp. nov. and

desulfobulbus alkaliphilus sp. nov., haloalkaliphilic

heterotrophic sulfate-reducing bacteria from soda lakes.

International journal of systematic and evolutionary

microbiology 62: 2107–2113. doi:10.1099/ijs.0.029777-0

23. Suzuki, D., Z. Li, X. Cui, C. Zhang, and A. Katayama. 2014.

Reclassification of Desulfobacterium anilini as Desulfatiglans

anilini comb. nov. within Desulfatiglans gen. nov., And

184

description of a 4-chlorophenol-degrading sulfate-reducing

bacterium, Desulfatiglans parachlorophenolica sp. nov.

International Journal of Systematic and Evolutionary

Microbiology 64: 3081–3086. doi:10.1099/ijs.0.064360-0

24. Thar, R., and M. Kühl. 2001. Motility of Marichromatium gracile

in response to light, oxygen, and sulfide. Applied and

environmental microbiology 67: 5410–9.

doi:10.1128/AEM.67.12.5410-5419.2001

25. Urios, L., L. Intertaglia, F. Lesongeur, and P. Lebaron. 2009.

Haliea rubra sp. nov., a member of the Gammaproteobacteria

from the Mediterranean Sea. International journal of systematic

and evolutionary microbiology 59: 1188–1192.

doi:10.1099/ijs.0.002220-0

26. Vandieken, V., M. Mußmann, H. Niemann, and B. B. Jørgensen.

2006. Desulfuromonas svalbardensis sp. nov. and Desulfuromusa

ferrireducens sp. nov., psychrophilic, Fe(III)-reducing bacteria

isolated from Arctic sediments, Svalbard. International Journal

185

of Systematic and Evolutionary Microbiology 56: 1133–1139.

doi:10.1099/ijs.0.63639-0

27. Yamada, T., H. Imachi, A. Ohashi, H. Harada, S. Hanada, Y.

Kamagata, and Y. Sekiguchi. 2007. Bellilinea caldifistulae gen.

nov., sp. nov and Longilinea arvoryzae gen. nov., sp. nov., strictly

anaerobic, filamentous bacteria of the phylum Chloroflexi

isolated from methanogenic propionate-degrading consortia.

International Journal of Systematic and Evolutionary

Microbiology 57: 2299–2306. doi:10.1099/ijs.0.65098-0

186

Table A3 Mean rank abundance of the dsrA-terminal restriction fragment (OTUs) within same oxygen groups.

(Continued)

Rank (All sample)

Uppermost

OTU

Oxic Dysoxic Suboxic All samples

Relative abundance

SD

Relative abundance

SD

Relative abundance

SD

Relative abundance

SD

1 217 25.91 8.03 25.16 2.76 25.80 5.41 25.70 5.69 2 375 11.07 5.13 18.64 2.61 14.95 4.17 14.35 4.94 3 128 6.34 1.46 6.50 1.21 6.15 1.40 6.30 1.28 4 111 7.19 5.29 4.96 1.42 5.44 1.85 5.96 3.34 5 219 4.06 2.10 7.55 2.08 6.23 1.89 5.74 2.31 6 264 5.36 1.72 6.24 1.50 5.69 1.36 5.69 1.44

7 80 5.32 3.18 5.72 0.75 5.69 0.69 5.56 1.85

8 78 3.87 0.70 2.92 2.53 3.88 0.81 3.67 1.25

9 365 2.24 0.85 3.31 0.84 3.03 1.28 2.81 1.08 10 105 3.07 2.37 1.54 1.35 2.82 1.33 2.64 1.75 11 56 3.85 3.66 1.77 0.04 1.99 0.65 2.61 2.28 12 222 2.22 1.43 1.49 1.61 2.04 0.58 1.99 1.11 13 131 2.08 0.36 1.50 1.31 2.12 0.28 1.97 0.63 14 153 1.73 0.33 1.44 1.25 1.73 0.54 1.67 0.63 15 619 0.92 0.26 2.48 2.71 1.06 0.50 1.32 1.29 16 372 1.17 1.61 0.70 0.62 1.58 0.73 1.25 1.09 17 93 1.05 0.61 1.31 0.27 0.99 0.51 1.08 0.49 18 83 1.10 0.56 0.87 0.76 1.13 0.46 1.06 0.53 19 108 1.06 0.09 0.78 0.68 1.13 0.13 1.03 0.32 20 267 0.90 0.53 0.87 0.75 1.21 0.22 1.03 0.47 21 383 1.17 2.61 0.00 0.00 0.53 1.00 0.64 1.64 22 272 0.82 0.54 0.93 0.93 0.32 0.51 0.63 0.63 23 269 0.79 1.59 0.10 0.18 0.76 0.17 0.63 0.94 24 352 0.64 0.59 0.85 0.74 0.44 0.57 0.60 0.59 25 380 0.89 0.53 0.43 0.74 0.36 0.56 0.56 0.60 26 379 0.20 0.46 0.87 0.81 0.66 0.73 0.54 0.67 27 79 1.15 2.58 0.00 0.00 0.00 0.00 0.41 1.54 28 75 0.53 0.37 0.52 0.47 0.25 0.39 0.41 0.39

Bold indicates more abundant OTUs in suboxic condition as compared to that in oxic condition.

187 Table A3 (Continued)

Rank (All sample)

Uppermost

OTU

Oxic Dysoxic Suboxic All samples

Relative abundance

SD

Relative abundance

SD

Relative abundance

SD

Relative abundance

SD

29 161 0.38 0.36 0.10 0.18 0.37 0.40 0.32 0.35 30 614 0.26 0.39 0.10 0.18 0.34 0.31 0.26 0.31 31 148 0.31 0.70 0.00 0.00 0.25 0.34 0.22 0.46 32 54 0.13 0.18 0.10 0.18 0.32 0.54 0.21 0.37 33 336 0.00 0.00 0.25 0.43 0.32 0.35 0.19 0.31 34 635 0.32 0.44 0.00 0.00 0.15 0.38 0.18 0.36 35 67 0.45 0.48 0.00 0.00 0.00 0.00 0.16 0.35 36 60 0.37 0.51 0.00 0.00 0.00 0.00 0.13 0.34 37 134 0.36 0.51 0.00 0.00 0.00 0.00 0.13 0.33 38 147 0.24 0.55 0.00 0.00 0.00 0.00 0.09 0.33 39 141 0.09 0.19 0.00 0.00 0.12 0.30 0.08 0.22 40 150 0.08 0.17 0.00 0.00 0.11 0.27 0.07 0.20 41 151 0.16 0.35 0.00 0.00 0.00 0.00 0.06 0.21 42 122 0.15 0.33 0.00 0.00 0.00 0.00 0.05 0.20

Bold indicates more abundant OTUs in suboxic condition as compared to that in oxic condition.

188

Table A3 (Continued)

Bold indicates more abundant OTUs in suboxic condition as compared to that in oxic condition.

Rank (All sample)

Subsurface

OTU

Oxic Dysoxic Suboxic All samples

Relative abundance

SD

Relative abundance

SD

Relative abundance

SD

Relative abundance

SD

1 217 21.38 6.29 21.86 3.00 23.95 4.30 22.58 4.71 2 375 14.48 3.77 18.80 2.64 17.81 1.35 16.83 3.10 3 215 10.48 6.52 12.69 1.98 6.51 7.17 9.25 6.34 4 219 4.99 1.19 5.85 0.89 6.58 1.87 5.85 1.56

5 79 5.60 1.77 4.18 0.44 5.13 0.51 5.09 1.17

6 128 5.46 0.53 4.72 1.17 4.97 0.59 5.09 0.72 7 111 5.69 2.75 3.35 0.51 4.37 0.63 4.62 1.83 8 264 4.58 1.10 4.09 1.13 4.76 0.63 4.55 0.89

9 78 3.59 1.30 3.17 0.77 4.06 1.22 3.70 1.15

10 365 2.08 0.58 2.06 0.17 2.34 0.35 2.18 0.42 11 105 2.68 1.93 1.22 0.15 1.79 0.47 1.99 1.26 12 267 1.51 0.40 2.37 0.32 1.89 0.26 1.86 0.45 13 131 1.66 0.86 1.28 0.30 2.13 0.66 1.78 0.73 14 153 1.52 0.32 2.04 0.36 1.70 0.32 1.71 0.36 15 619 1.59 0.21 1.48 0.42 1.53 0.24 1.54 0.26 16 56 1.26 0.94 1.69 0.97 1.56 0.37 1.48 0.71 17 372 1.31 0.51 1.80 0.45 1.33 0.29 1.42 0.43 18 222 1.61 1.09 0.85 0.23 1.34 0.52 1.33 0.75 19 108 1.42 0.58 1.20 0.27 1.21 0.28 1.28 0.39 20 93 1.06 0.63 1.17 0.18 1.39 0.30 1.22 0.43 21 269 1.13 0.48 0.79 0.27 0.89 0.13 0.95 0.33 22 379 0.76 0.49 1.06 0.14 0.99 0.11 0.92 0.31 23 54 0.99 2.21 0.67 0.64 0.39 0.38 0.66 1.31 24 83 0.38 0.41 0.69 0.35 0.44 0.40 0.47 0.38 25 74 0.27 0.37 0.61 0.61 0.55 0.44 0.46 0.44 26 383 0.91 2.03 0.00 0.00 0.00 0.00 0.32 1.21 27 746 0.12 0.27 0.11 0.18 0.17 0.30 0.14 0.25 28 272 0.17 0.38 0.20 0.17 0.05 0.13 0.13 0.25

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