Skip to main content

Table 3 Summary of microbial community analysis conducted during phase II

From: Optimization of DNA extraction for advancing coral microbiota investigations

Treatment × species

n

# readsa

MED richnessb

MED evenness (J’)c

Total community structured

Detailed analysis

Top 50% MED coverage

PB × P. lobata

2

142,167 (14,141)

129 (35)

0.40 (0.13)

VGl, PB: R = 0.75

VGl, VG: R = 1

VG, PB: R = 0.5

p = 0.001 for all

No; low reads

–

VGl × P. lobata

3

401 (161)

86 (22)

0.70 (0.07)d

PG × P. lobata

1

641

100

0.61

–

VG × P. lobata

3

2594 (713)

74 (16)

0.29 (0.08)

Tested above

PB × P. verrucosa

1

13,153

161

0.53

–

No; low reads; low biological replication

–

VGl × P. verrucosa

1

603

117

0.78

–

PG × P. verrucosa

3

745 (691)

105 (19)d

0.77 (0.16)

No differences

VG × P. verrucosa

3

152 (23)

65 (11)

0.85 (0.04)

PB × A. humilis

3

22,105 (20,156)

131 (30)

0.31 (0.21)

No differences

Yes

0.78

VGl × A. humilis

2

21,133 (27,005)

60 (2)d

0.36 (0.41)

0.67

PG × A. humilis

2

42,241 (53,217)

85 (2)

0.40 (0.45)

0.67

VG × A. humilis

3

15,536 (11,314)

59 (5)d

0.27 (0.21)

0.7

PB × O. faveolata

4

72,587 (25,401)

378 (71)

0.60 (0.16)

No differences

Yes

0.84

VGl × O. faveolata

4

16,355 (18,421)

237 (90)

0.56 (0.17)

0.71

PG × O. faveolata

4

28,852 (17,895)

392 (87)

0.66 (0.12)

0.77

VG × O. faveolata

4

18,630 (9437)

361 (43)

0.61 (0.10)

0.68

PB × M. cavernosa

0

n/a

n/a

n/a

n/a

No; not all treatments represented

–

VGl × M. cavernosa

2

65,040 (3908)

405 (22)

0.63 (0.12)

No differences

PG × M. cavernosa

3

51,741 (26,956)

366 (40)

0.57 (0.04)

VG x M. cavernosa

2

52,055 (7028)

355 (115)

0.67 (0.14)

PB × O. annularis

3

87,777 (11,390)

485 (60)

0.73 (0.09)

No differences

Yes

0.87

VGl × O. annularis

3

32,681 (4358)

357 (45)

0.74 (0.08)

0.77

PG × O. annularis

3

24,582 (4974)

313 (130)

0.75 (0.15)

0.67

VG × O. annularis

3

34,152 (8088)

382 (123)

0.71 (0.16)

0.77

PB × D. strigosa

1

65,392

268

0.27

n/a

No; not all treatments represented; low biological replication

–

VGl x D. strigosa

0

n/a

n/a

n/a

PG × D. strigosa

1

60,393

211

0.23

VG × D. strigosa

1

41,726

172

0.18

  1. All values are presented as mean (standard deviation (S. D.)) when appropriate. Single values with no S.D. represent samples from treatments with no replicates, and these values were not included in statistical significance testing
  2. n = number of samples included in microbial community analysis after quality-filtering sequences
  3. aAverage number of reads obtained for that species × treatment grouping out of the total number of analyzed reads
  4. bSpecies superscripts within a column indicate significantly different MED richness between treatments (p < 0.05, one-tailed t test or one-way ANOVA with the Holm-Sidak method post hoc test)
  5. cMED evenness values (J’) for each treatment with different superscripts indicate significant differences in species evenness (p < 0.05, one-way ANOVA with Holm-Sidak method post hoc test)
  6. dDifferences in community structure were first determined using one-way ANOSIM global tests within each coral species (p < 0.05 is significance threshold). If significant differences were found, pairwise tests were conducted between the different treatments. Species × treatment combinations with only one sample were excluded in this analysis
Back to article page

Microbiome

ISSN: 2049-2618

Contact us