Anim Biosci > Volume 29(4); 2016 > Article |
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Microbial species | Primer sequence (5′-3′) | Product size (bp) | Reference |
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Total bacteria |
FP: CGGCAACGAGCGCAACCC RP: CCATTGTAGCACGTGTGTAGCC |
130 | Zeng et al., 2012 |
Ruminococcus flavefaciens |
FP: CGAACGGAGATAATTTGAGTTTACTTAGG RP: CGGTCTCTGTATGTTATGAGGTATTACC |
132 | Zeng et al., 2012 |
Fibrobacter succinogenes |
FP: GTTCGGAATTACTGGGCGTAA A RP: CGCCTGCCCCTGAACTATC |
121 | Zeng et al., 2012 |
Ruminococcus albus |
FP: CCCTAAAAGCAGTCTTAGTTCG RP: CCTCCTTGCGGTTAGAACA |
176 | Zeng et al., 2012 |
Butyrivibrio fibrisolvens |
FP: GAGGAAGTAAAAGTCGTAACAAGGTTTC RP: CAAATTCACAAAGGGTAGGATGATT |
160 | Zeng et al., 2012 |
Methanogen |
FP: GGATTAGATACCCSGGTAGT RP: GTTGARTCCAATTAAACCGCA |
174 | Christophersen, 2007 |
Fungus |
FP: GAGGAAGTAAAAGTCGTAACAAGGTTTC RP: CAAATTCACAAAGGGTAGGATGATT |
120 | Denman and McSweeney, 2006 |
Protozoa |
FP: GCTTTCGWTGGTAGTGTATT RP: ACTTGCCCTCYAATCGTWCT |
223 | Sylvester et al., 2004 |
Item | MCS (mg/mL) | SEM | MCS effect | ||||||
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0 | 0.01 | 0.06 | 0.30 | 0.60 | Linear | Quadratic | Cubic | ||
VF (mL) | 44.99 a | 49.44 a | 49.44 a | 44.51 a | 19.72 b | 2.199 | *** | *** | NS |
k (1/h) | 0.07 b | 0.06 b | 0.05 b | 0.06 b | 0.15 a | 0.009 | *** | *** | NS |
FRD0 (/h) | 0.04 b | 0.03 b | 0.04 b | 0.04 b | 0.15 a | 0.004 | *** | *** | * |
t0.5 (h) | 14.68 a | 16.90 a | 17.30 a | 17.95 a | 4.80 b | 1.063 | *** | *** | NS |
Item | Incubation time (h) | MCS (mg/mL) | SEM | MCS effect | ||||||
---|---|---|---|---|---|---|---|---|---|---|
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0 | 0.01 | 0.06 | 0.30 | 0.60 | Linear | Quadratic | Cubic | |||
pH | 6 | 6.72 | 6.73 | 6.72 | 6.73 | 6.73 | 0.009 | NS | NS | NS |
24 | 6.61 d | 6.64 bc | 6.62 cd | 6.64 b | 6.72 a | 0.007 | *** | ** | NS | |
48 | 6.54bc | 6.56 b | 6.52 c | 6.54bc | 6.69 a | 0.009 | *** | *** | * | |
NH3-N (mM) | 6 | 33.82 ab | 28.33 b | 30.39 b | 31.43 b | 37.70 a | 1.877 | * | * | NS |
24 | 40.17 ab | 34.62 b | 28.52 c | 39.22 ab | 42.87 a | 1.880 | * | ** | ** | |
48 | 47.18 | 47.72 | 47.19 | 46.81 | 46.82 | 2.046 | NS | NS | NS | |
Total VFA (mM) | 6 | 16.90 | 17.94 | 15.00 | 13.90 | 14.03 | 1.710 | NS | NS | NS |
24 | 35.49 a | 31.20 a | 30.07 a | 20.21 b | 20.56 b | 2.470 | *** | NS | NS | |
48 | 44.35 b | 52.63 a | 44.63 b | 32.93 c | 28.72 c | 2.535 | *** | NS | ** | |
Acetate, (molar % of total VFA) | 6 | 38.78 | 42.85 | 41.05 | 39.04 | 37.99 | 1.962 | NS | NS | NS |
24 | 41.23 c | 42.64 bc | 44.10 bc | 45.59 ab | 47.85 a | 1.111 | *** | NS | NS | |
48 | 49.83 ab | 47.12 ab | 54.45 a | 34.79 c | 42.09 bc | 3.214 | * | NS | ** | |
Propionate (molar % of total VFA) | 6 | 31.29 | 28.30 | 28.88 | 28.54 | 32.05 | 1.328 | NS | NS | NS |
24 | 28.14 a | 27.25 ab | 24.37 c | 28.26 a | 24.74 bc | 0.810 | NS | NS | * | |
48 | 23.66 b | 24.91 ab | 21.75 b | 29.66 a | 26.62 ab | 1.732 | NS | NS | * | |
Isobutyrate (molar % of total VFA) | 6 | 3.84 | 3.91 | 4.32 | 6.07 | 4.67 | 0.769 | NS | NS | NS |
24 | 4.20 | 4.81 | 5.18 | 7.50 | 6.38 | 1.070 | NS | NS | NS | |
48 | 3.25 b | 4.14 ab | 3.80 ab | 5.66 a | 3.42 b | 0.682 | NS | * | NS | |
Butyrate (molar % of total VFA) | 6 | 19.89 | 19.05 | 18.93 | 27.78 | 18.25 | 3.653 | NS | NS | NS |
24 | 19.68 b | 28.13 ab | 26.33 ab | 36.10 a | 26.49 ab | 4.361 | NS | * | NS | |
48 | 16.34 bc | 15.87 bc | 13.23 c | 19.86 a | 18.29 ab | 1.094 | * | NS | ** | |
Isovalerate (molar % of total VFA) | 6 | 4.56 | 4.58 | 5.06 | 7.45 | 5.44 | 0.918 | NS | NS | NS |
24 | 6.42b | 7.49 ab | 8.27 ab | 11.56 a | 10.11ab | 1.441 | * | NS | NS | |
48 | 5.30 b | 5.26 b | 4.98 b | 7.25 a | 7.17 a | 0.502 | *** | NS | * | |
Valerate (molar % of total VFA) | 6 | 1.64 ab | 1.27 b | 1.75 ab | 2.46 a | 1.61 ab | 0.284 | NS | NS | NS |
24 | 2.08 b | 3.55 ab | 3.17 ab | 4.26 a | 3.20 ab | 0.555 | NS | * | NS | |
48 | 1.73 | 2.70 | 1.79 | 2.77 | 2.91 | 0.390 | NS | NS | NS | |
A/P | 6 | 1.25 | 1.56 | 1.45 | 1.41 | 1.19 | 0.127 | NS | NS | NS |
24 | 1.59 c | 1.61c | 1.89 ab | 1.72 bc | 1.95 a | 0.064 | ** | NS | NS | |
48 | 2.26 ab | 1.93 abc | 2.73 a | 1.21 c | 1.61bc | 0.315 | * | NS | * |
Item | Incubation time (h) | MCS (mg/mL) | SEM | MCS effect | ||||||
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0 | 0.01 | 0.06 | 0.30 | 0.60 | Linear | Quadratic | Cubic | |||
Fibrobacter succinogenes | 6 | 0.82 a | 0.54 b | 0.55 b | 0.02 c | 0.01 c | 0.001 | *** | * | NS |
24 | 0.88 a | 0.63 a | 1.08 a | 1.23 a | 0.02 b | 0.002 | * | ** | NS | |
Ruminococcus albus | 6 | 0.23 b | 0.22 b | 0.46 a | 0.21 b | 0.39 a | 0.001 | NS | NS | ** |
24 | 0.63 b | 0.90 b | 1.71 a | 1.01 b | 1.22 ab | 0.002 | NS | * | * | |
Butyrivibrio fibrisolvens (10−3) | 6 | 0.34 b | 0.60 a | 0.50 ab | 0.29 b | 0.04 c | 0.007 | *** | * | NS |
24 | 17.78 bc | 34.81 ab | 52.43 a | 22.80 abc | 0.08 c | 0.096 | * | * | NS | |
Ruminococcus flavefaciens (10−3) | 6 | 2.07 ab | 0.66 b | 3.19 a | 1.70 ab | 2.85 ab | 0.007 | NS | NS | NS |
24 | 1.75 ab | 0.93 b | 2.99 a | 0.86 b | 0.96 b | 0.006 | NS | NS | NS | |
Fungus (10−3) | 6 | 0.32 b | 0.54 a | 0.57 a | 0.21 bc | 0.007 c | 0.001 | *** | * | ** |
24 | 14.48 b | 33.52 a | 41.87 a | 15.64 b | 0.09 c | 0.037 | *** | ** | ** | |
Methanogen | 6 | 0.14 | 0.13 | 0.15 | 0.12 | 0.15 | 0.000 | NS | NS | NS |
24 | 0.22 | 0.24 | 0.48 | 0.22 | 0.20 | 0.001 | NS | NS | NS | |
Protozoa | 6 | 0.40 ab | 0.65 a | 0.42 ab | 0.26 b | 0.15 b | 0.001 | * | NS | NS |
24 | 0.25 | 0.25 | 0.26 | 0.17 | 0.07 | 0.001 | * | NS | NS |
Item | VF | FRD0 | t0.5 | Acetate (% of tVFA) | Propionate (% of tVFA) | Isobutyrate (% of tVFA) | Butyrate (% of tVFA) | Isovalerate (% of tVFA) | Valerate (% of tVFA) | tVFA | A/P |
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F. succinogenes | 0.826 | −0.878 | 0.905* | 0.131 | −0.200 | −0.489 | −0.333 | −0.210 | 0.352 | 0.567 | 0.162 |
R. albus | −0.078 | −0.153 | −0.037 | 0.801** | −0.837** | −0.552 | −0.479 | 0.326 | 0.631 | 0.732* | 0.845** |
B. fibrisolvens | 0.820 | −0.749 | 0.783 | 0.427 | −0.509 | −0.426 | −0.254 | 0.122 | 0.591 | 0.842** | 0.462 |
R. flavefaciens | 0.390 | −0.323 | 0.293 | 0.228 | −0.072 | −0.488 | −0.341 | −0.399 | 0.468 | 0.529 | 0.157 |
Fungus | 0.814 | −0.729 | 0.750 | −0.081 | 0.249 | −0.367 | 0.223 | −0.849 | 0.172 | −0.271 | −0.271 |
Methanogen | 0.456 | −0.372 | 0.411 | 0.590 | −0.590 | −0.497 | −0.374 | 0.126 | 0.558 | 0.742* | 0.597 |
Protozoa | 0.942* | −0.901* | 0.832 | −0.177 | 0.379 | −0.077 | 0.073 | −0.688* | −0.628 | −0.314* | −0.358 |
F. succinogenes, Fibrobacter succinogenes; R. albus, Ruminococcus albus; B. fibrisolvens, Butyrivibrio fibrisolvens; R. flavefaciens, Ruminococcus flavefaciens; VFA, volatile fatty acid; VF, the theoretical maximum of gas production; FRD0, the initial fractional rate of degradation; t0.5, the time at which half of the final gas production; tVFA, total VFA; A/P, acetate to propionate ratio.