RNA-Seq Analysis for Assessing the Early Response to DSP Toxins in Mytilus galloprovincialis Digestive Gland and Gill
Abstract
:1. Introduction
2. Results
2.1. Toxin Accumulation
2.2. Transcriptome Sequencing and De Novo Assembly
2.3. DEGs Among Samples
2.4. Gene Functional Annotations
2.5. Real-Time Quantitative PCR (qPCR) Validation
3. Discussion
4. Conclusions
5. Materials and Methods
5.1. Sample Collection and Experimental Design
5.2. RNA Extraction
5.3. Library Preparation and Sequencing
5.4. De Novo Assembly
5.5. Differential Expression, Functional Annotation and Functional Enrichment Analysis of DEGs
5.6. Real-Time Quantitative PCR Validation
Supplementary Materials
Author Contributions
Funding
Acknowledgments
Conflicts of Interest
References
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Total number of contigs | 95,702 | L25 | 1682 bp |
Total length | 71,623.079 Kb | N50 | 21,152 |
Maximum contig length | 16,082 Kb | L50 | 1062 bp |
Minimum contig length | 102 pb | N75 | 42,376 |
Average contig length | 748 bp | L75 | 668 bp |
N25 | 7537 | %GC | 33.20% |
Sequence ID | Description | Length (bp) | baseMean | Log2FC | FC | p-Value | Adjusted p-Value |
---|---|---|---|---|---|---|---|
ci|000006456|Bact|Sample_MGT2|2 | cytochrome c oxidase subunit 1, partial | 910 | 23,389.22 | 7.09 | 136.29 | 1.96 × 10112 | 1.70 × 10−107 |
ci|000001182|Bact|Sample_MBT2|2 | * ATP-synt_A | 578 | 3975.18 | 7.21 | 147.76 | 6.65 × 10 −66 | 1.92 × 10−61 |
Contig39610 | ribosomal protein L23a, partial | 1166 | 2205.27 | 7.92 | 243.02 | 3.89 × 10−43 | 6.71 × 10−39 |
ci|000005084|Bact|Sample_MGT2|2 | cytochrome c oxidase subunit I | 1848 | 12,611.71 | 6.23 | 75.08 | 1.91 × 10−37 | 2.75 × 10−33 |
Contig34888 | NA | 529 | 608.03 | 8.47 | 355.72 | 4.04 × 10−35 | 4.98 × 10−31 |
ci|000015505|Bact|Sample_MGT1|2 | NA | 588 | 1046.84 | 5.05 | 33.22 | 9.05 × 10−35 | 9.78 × 10−31 |
ci|000014133|Bact|Sample_MGT2|2 | * Glyco_hydro_16 | 949 | 411.92 | 6.95 | 124.04 | 3.09 × 10−34 | 2.97 × 10−30 |
Contig22742 | NA | 1165 | 944.38 | 6.61 | 97.63 | 4.80 × 10−33 | 4.14 × 10−29 |
Contig33832 | Kazal-like serine protease inhibitor domain-containing protein | 507 | 514.55 | 6.70 | 103.84 | 6.63 × 10−33 | 5.20 × 10−29 |
ci|000004031|Bact|Sample_MGT1|2 | * Porin_3 | 1024 | 888.45 | 5.19 | 36.44 | 3.14 × 10−31 | 2.09 × 10−27 |
ci|000016700|Bact|Sample_MGT1|2 | † COX1_MYTED | 750 | 12,157.03 | 6.86 | 116.52 | 2.32 × 10−30 | 1.43 × 10−26 |
ci|000022316|Bact|Sample_MBT1|2 | * Ribosomal_L23 | 340 | 280.82 | 6.68 | 102.35 | 2.26 × 10−28 | 1.15 × 10−24 |
Contig17884 | PREDICTED: 60 kDa SS-A/Ro ribonucleoprotein | 1726 | 227.65 | 5.51 | 45.57 | 6.21 × 10−25 | 2.68 × 10−21 |
ci|000012420|Bact|Sample_MGT2|2 | NA | 560 | 761.81 | 9.97 | 1004.61 | 2.04 × 10−24 | 8.01 × 10−21 |
ci|000010593|Bact|Sample_MBC1|2 | * Ribosomal_L7Ae | 458 | 403.47 | 8.29 | 313.91 | 6.26 × 10−23 | 2.16 × 10−19 |
ci|000001186|Bact|Sample_MGT2|2 | NA | 316 | 209.87 | 6.26 | 76.55 | 7.11 × 10−23 | 2.36 × 10−19 |
ci|000001089|Bact|Sample_MGT2|2 | NA | 1106 | 224.57 | 5.35 | 40.77 | 1.03 × 10−20 | 3.08 × 10−17 |
Contig35276 | NA | 420 | 188.91 | 7.45 | 174.32 | 6.35 × 10−20 | 1.77 × 10−16 |
Contig38903 | * Myticin-prepro | 506 | 510.91 | 9.28 | 623.48 | 1.02 × 10−19 | 2.68 × 10−16 |
ci|000022507|Bact|Sample_MBT2|2 | * Ribosomal_S9 | 1568 | 918.24 | 5.20 | 36.82 | 3.34 × 10−19 | 7.79 × 10−16 |
ci|000000480|Bact|Sample_MGT2|2 | * Astacin | 858 | 563.33 | 6.67 | 101.71 | 4.63 × 10−19 | 1.00 × 10−15 |
ci|000018470|Bact|Sample_MGT1|2 | * Lectin_C | 633 | 186.73 | 7.90 | 238.40 | 5.47 × 10−19 | 1.13 × 10−15 |
ci|000004710|Bact|Sample_MBC2|2 | NA | 1395 | 219.14 | 6.06 | 66.62 | 1.35 × 10−18 | 2.66 × 10−15 |
ci|000008308|Bact|Sample_MGT1|2 | NA | 464 | 637.37 | 5.04 | 32.92 | 1.82 × 10−18 | 3.49 × 10−15 |
ci|000004147|Bact|Sample_MGT2|2 | NA | 622 | 507.89 | 6.81 | 112.02 | 2.47 × 10−18 | 4.65 × 10−15 |
Sequence ID | Description | Length (bp) | baseMean | Log2FC | FC | p-Value | Adjusted p-Value |
---|---|---|---|---|---|---|---|
ci|000007816|Bact|Sample_MGC1|2 | NA | 539 | 7514.26 | −7.48 | −178.70 | 1.66 × 10−82 | 7.17 × 10−78 |
Contig22552 | NA | 622 | 131,251.75 | −6.93 | −121.52 | 5.49 × 10−60 | 1.18 × 10−55 |
Contig26868 | NADH dehydrogenase subunit 5, partial | 719 | 1916.17 | −6.96 | −124.62 | 2.16 × 10−32 | 1.56 × 10−28 |
Contig28135 | 40S ribosomal protein S10-like | 559 | 406.63 | −5.12 | −34.81 | 5.46 × 10−29 | 3.14 × 10−25 |
Contig30578 | * DUF1082 | 529 | 3132.77 | −9.97 | −1005.57 | 2.05 × 10−28 | 1.11 × 10−24 |
Contig28105 | * SRCR | 1419 | 329.84 | −7.74 | −213.17 | 2.60 × 10−26 | 1.25 × 10−22 |
ci|000000372|Bact|Sample_MGC1|2 | NA | 723 | 851.06 | −6.15 | −70.81 | 7.19 × 10−26 | 3.27 × 10−22 |
ci|000009048|Bact|Sample_MBC1|2 | NA | 703 | 359.37 | −8.39 | −334.64 | 1.14 × 10−24 | 4.67 × 10−21 |
Contig26906 | NA | 530 | 286.75 | −8.12 | −279.10 | 1.47 × 10−23 | 5.52 × 10−20 |
ci|000018684|Bact|Sample_MBC2|2 | * Cytochrom_B_N_2 | 643 | 2708.10 | −7.79 | −221.90 | 5.93 × 10−23 | 2.13 × 10−19 |
ci|000000728|Bact|Sample_MGC2|2 | NA | 768 | 510.67 | −9.66 | −810.78 | 8.67 × 10−23 | 2.77 × 10−19 |
Contig29976 | uncharacterized protein LOC567525 isoform X1/* Fibrinogen_C | 1089 | 167.09 | −6.83 | −114.10 | 6.31 × 10−21 | 1.95 × 10−17 |
ci|000000734|Bact|Sample_MGC2|2 | * Zona_pellucida | 1185 | 255.85 | −9.02 | −518.06 | 4.16 × 10−20 | 1.20 × 10−16 |
Contig26843 | NA | 984 | 230.17 | −4.23 | −18.76 | 7.68 × 10−20 | 2.07 × 10−16 |
ci|000002253|Bact|Sample_MGC2|2 | PREDICTED: GTPase IMAP family member 7/* AIG1 | 1188 | 255.05 | −7.83 | −228.11 | 1.33 × 10−19 | 3.37 × 10−16 |
ci|000003979|Bact|Sample_MGC1|2 | NA | 1136 | 233.95 | −8.88 | −471.60 | 2.94 ×10−19 | 7.25 × 10−16 |
ci|000021317|Bact|Sample_MBC1|2 | NA | 834 | 1818.89 | −6.97 | −125.28 | 3.04 × 10−19 | 7.29 × 10−16 |
ci|000008655|Bact|Sample_MGC2|2 | NA | 374 | 1501.18 | −8.07 | −267.93 | 4.48 × 10−19 | 1.00 × 10−15 |
ci|000004674|Bact|Sample_MGC2|2 | Perlucin | 660 | 174.13 | −5.61 | −48.70 | 4.57 × 10−19 | 1.00 × 10−15 |
ci|000023153|Bact|Sample_MBT1|2 | * COX1 | 605 | 4253.61 | −6.85 | −115.03 | 5.47 × 10−19 | 1.13 × 10−15 |
ci|000001983|Bact|Sample_MBC2|2 | * KOW | 607 | 4924.53 | −2.78 | −6.88 | 8.86 × 10−19 | 1.78 × 10−15 |
ci|000005149|Bact|Sample_MGC1|2 | * TIG | 612 | 148.86 | −6.00 | −64.19 | 2.90 × 10−17 | 5.11 × 10−14 |
ci|000009215|Bact|Sample_MGC2|2 | * Glyco_hydro_10 | 946 | 136.75 | −7.11 | −138.62 | 4.08 × 10−17 | 7.06 × 10−14 |
Contig28020 | NA | 570 | 166.31 | −8.45 | −350.56 | 4.96 × 10−17 | 8.24 × 10−14 |
ci|000015516|Bact|Sample_MBT2|2 | * Ribosomal_L22 | 1338 | 1356.05 | −4.92 | −30.37 | 1.19 × 10−16 | 1.87 × 10−13 |
Sequence ID | Description | Length (bp) | baseMean | Log2FC | FC | p-Value | Adjusted p-Value |
---|---|---|---|---|---|---|---|
ci|000029194|Bact|Sample_MBT1|2 | * EF-hand_1 and 7 | 508 | 3570.44 | 9.76 | 868.30 | 7.36 × 10−98 | 6.48 × 10−93 |
ci|000006043|Bact|Sample_MBT1|2 | NA | 471 | 4432.18 | 6.05 | 66.47 | 4.32 × 10−60 | 1.90 × 10−55 |
ci|000001929|Bact|Sample_MBT2|2 | NA | 690 | 803.53 | 7.61 | 195.15 | 4.55 × 10−49 | 1.00 × 10−44 |
ci|000002899|Bact|Sample_MBT1|2 | NA | 779 | 1066.24 | 9.48 | 715.09 | 9.38 × 10−40 | 1.65 × 10−35 |
Contig35833 | NA | 944 | 520.96 | 8.45 | 350.51 | 6.42 × 10−29 | 6.28 × 10−25 |
ci|000022507|Bact|Sample_MBT2|2 | NADH dehydrogenase subunit 6 | 1568 | 475.01 | 3.90 | 14.88 | 1.10 × 10−28 | 9.70 × 10−25 |
ci|000017597|Bact|Sample_MBT1|2 | * Antistasin | 795 | 266.99 | 7.13 | 140.36 | 1.22 × 10−28 | 9.79 × 10−25 |
ci|000007496|Bact|Sample_MBT2|2 | NA | 745 | 425.52 | 6.39 | 84.07 | 4.01 × 10−28 | 2.94 × 10−24 |
ci|000020755|Bact|Sample_MBT2|2 | † NU4M_MYTED | 1483 | 849.56 | 5.15 | 35.44 | 1.44 × 10−26 | 9.05 × 10−23 |
ci|000025759|Bact|Sample_MBT2|2 | NA | 2007 | 257.03 | 7.56 | 188.10 | 1.81 × 10−26 | 1.06 × 10−22 |
Contig39610 | * Ribosomal_L23 | 1166 | 453.85 | 6.46 | 87.80 | 3.94 × 10−26 | 2.16 × 10−22 |
Contig15942 | NA | 482 | 916.44 | 5.84 | 57.29 | 6.24 × 10−26 | 3.23 × 10−22 |
ci|000001411|Bact|Sample_MGC2|2 | * HSBP1 | 580 | 421.11 | 4.55 | 23.41 | 1.82 × 10−25 | 8.92 × 10−22 |
ci|000005084|Bact|Sample_MGT2|2 | * COX1 | 1848 | 3923.98 | 3.98 | 15.75 | 3.81 × 10−25 | 1.77 × 10−21 |
ci|000003417|Bact|Sample_MBT2|2 | * Phospholip_A2_1 | 562 | 203.18 | 6.08 | 67.55 | 1.10 × 10−23 | 4.05 × 10−20 |
Contig20144 | NA | 2258 | 205.66 | 3.81 | 14.01 | 4.48 × 10−23 | 1.58 × 10−19 |
ci|000019916|Bact|Sample_MBT1|2 | NA | 768 | 241.64 | 7.15 | 141.88 | 1.42 × 10−22 | 4.45 × 10−19 |
ci|000001302|Bact|Sample_MBT1|2 | NA | 675 | 281.74 | 6.61 | 97.65 | 1.36 × 10−21 | 4.00 × 10−18 |
ci|000018492|Bact|Sample_MBT1|2 | NA | 1552 | 159.56 | 5.50 | 45.19 | 1.59 × 10−21 | 4.36 × 10−18 |
Contig13066 | Calcyphosin-like protein | 2325 | 853.76 | 3.68 | 12.85 | 2.01 × 10−21 | 5.35 × 10−18 |
ci|000018122|Bact|Sample_MBT2|2 | * HYR and TMEM154 | 3321 | 2042.07 | 4.34 | 20.27 | 2.30 × 10−21 | 5.95 ×10−18 |
Contig12937 | † RS27L_HUMAN | 2183 | 321.15 | 7.71 | 210.04 | 3.66 × 10−21 | 9.21 × 10−18 |
ci|000000451|Bact|Sample_MGT2|2 | NA | 655 | 587.43 | 2.92 | 7.57 | 1.42 × 10−20 | 3.38 × 10−17 |
ci|000003122|Bact|Sample_MBT2|2 | NA | 1513 | 215.45 | 7.54 | 185.87 | 4.85 × 10−20 | 1.12 × 10−16 |
Contig40138 | NA | 584 | 136.63 | 6.17 | 72.15 | 7.64 × 10−20 | 1.72 × 10−16 |
Sequence ID | Description | Length (bp) | baseMean | Log2FC | FC | p-Value | Adjusted p-Value |
---|---|---|---|---|---|---|---|
ci|000007038|Bact|Sample_MBC2|2 | low-density lipoprotein receptor-related protein 8 isoform X1 | 689 | 1321.99 | −9.45 | −700.32 | 1.06 × 10−53 | 3.11 × 10−49 |
Contig3681 | NA | 895 | 1561.88 | −10.25 | −1216.97 | 9.98 × 10−37 | 1.46 × 10−32 |
Contig11592 | NA | 798 | 652.29 | −9.55 | −752.01 | 4.28 × 10−31 | 5.38 × 10−27 |
Contig1183 | NA | 581 | 802.66 | −4.76 | −27.10 | 9.28 × 10−30 | 1.02 × 10−25 |
Contig8105 | NA | 1717 | 199.06 | −6.43 | −86.51 | 3.62 × 10−27 | 2.45 × 10−23 |
ci|000015242|Bact|Sample_MGT2|2 | NA | 663 | 429.13 | −7.24 | −151.36 | 4.36 × 10−25 | 1.92 × 10−21 |
ci|000005973|Bact|Sample_MBC1|2 | NA | 1860 | 257.90 | −4.59 | −24.07 | 5.34 × 10−25 | 2.24 × 10−21 |
Contig10936 | * Oxidored_q1 | 2797 | 18,810.53 | −1.67 | −3.18 | 3.68 × 10−24 | 1.47 × 10−20 |
ci|000000312|Bact|Sample_MBC1|2 | NA | 972 | 208.97 | −7.32 | −159.95 | 4.63 × 10−24 | 1.77 × 10−20 |
Contig6277 | NA | 702 | 2009.78 | −10.35 | −1303.40 | 6.01 × 10−23 | 2.04 × 10−19 |
ci|000016192|Bact|Sample_MBC1|2 | * Ldl_recept_a and PRKCSH-like | 946 | 4008.01 | −2.65 | −6.26 | 9.71 × 10−23 | 3.17 × 10−19 |
Contig3876 | Predicted protein | 536 | 295.82 | −8.43 | −344.34 | 5.01 × 10−22 | 1.52 × 10−18 |
Contig4774 | neurocalcin homolog | 1267 | 339.45 | −4.83 | −28.39 | 1.49 × 10−21 | 4.22 × 10−18 |
ci|000000823|Bact|Sample_MBC2|2 | NA | 803 | 325.92 | −3.99 | −15.91 | 1.06 × 10−20 | 2.59 × 10−17 |
Contig6059 | NA | 486 | 5331.78 | −1.93 | −3.82 | 8.13 × 10−20 | 1.76 × 10−16 |
Contig7283 | cytochrome c oxidase subunit I | 2879 | 132.24 | −5.09 | −34.06 | 9.51 × 10−20 | 1.99 × 10−16 |
ci|000015433|Bact|Sample_MBC1|2 | cytochrome c oxidase subunit I | 1136 | 17,057.57 | −3.52 | −11.49 | 3.00 × 10−19 | 5.74 × 10−16 |
ci|000004320|Bact|Sample_MBC1|2 | * Lipoxygenase | 1950 | 564.59 | −9.46 | −703.80 | 3.48 × 10−19 | 6.24 × 10−16 |
ci|000001144|Bact|Sample_MBC2|2 | NA | 434 | 221.23 | −8.61 | −389.88 | 4.06 × 10−19 | 7.15 × 10−16 |
ci|000008127|Bact|Sample_MBC2|2 | NA | 2503 | 364.67 | −10.03 | −1043.76 | 7.20 × 10−19 | 1.22 × 10−15 |
ci|000005247|Bact|Sample_MBC1|2 | NA | 1246 | 153.48 | −6.35 | −81.80 | 1.26 × 10−18 | 2.09 × 10−15 |
ci|000001610|Bact|Sample_MBC1|2 | NA | 1057 | 341.22 | −9.94 | −982.30 | 1.93 × 10−18 | 3.11 × 10−15 |
ci|000000874|Bact|Sample_MBC2|2 | NA | 697 | 153.63 | −5.02 | −32.42 | 5.21 × 10−18 | 7.77 × 10−15 |
ci|000002263|Bact|Sample_MBC1|2 | * Pfam-B_5682 | 1222 | 151.49 | −4.77 | −27.37 | 6.23 × 10−18 | 8.99 × 10−15 |
ci|000003990|Bact|Sample_MGT2|2 | NA | 521 | 310.73 | −9.76 | −866.01 | 2.46 × 10−17 | 3.23 × 10−14 |
Category | Number of Genes | p-Value |
---|---|---|
PF04548.11//AIG1 | 26 | 0.00248912 |
PF01926.18//MMR_HSR1 | 25 | 0.0029543 |
PF00059.16//Lectin_C | 21 | 0.01366918 |
PF00100.18//Zona_pellucida | 16 | 0.00403746 |
PF13499.1//EF-hand_7 | 14 | 0.00221868 |
PF13405.1//EF-hand_6 | 14 | 0.00355134 |
PF00036.27//EF-hand_1 | 13 | 0.00065889 |
PF13202.1//EF-hand_5 | 13 | 0.02872925 |
PF13833.1//EF-hand_8 | 12 | 0.02032022 |
PF00361.15//Oxidored_q1 | 10 | 0.00489835 |
PF00119.15//ATP-synt_A | 8 | 0.00023995 |
PF10690.4//Myticin-prepro | 8 | 0.02237525 |
PF07679.11//I-set | 7 | 0.04744078 |
Category | Number of Genes | p-Value |
---|---|---|
PF00386.16//C1q | 36 | 5.2 × 10−8 |
PF00036.27//EF-hand_1 | 31 | 0.00035296 |
PF13499.1//EF-hand_7 | 29 | 0.00014495 |
PF13405.1//EF-hand_6 | 27 | 8.61 × 10−5 |
PF00147.13//Fibrinogen_C | 25 | 0.01665835 |
PF13202.1//EF-hand_5 | 23 | 0.00079724 |
PF13833.1//EF-hand_8 | 20 | 0.00015502 |
PF10690.4//Myticin-prepro | 13 | 0.01435613 |
PF00361.15//Oxidored_q1 | 13 | 0.03222834 |
PF07679.11//I-set | 9 | 0.00010238 |
PF09458.5//H_lectin | 9 | 0.00621282 |
PF01607.19//CBM_14 | 9 | 0.02592731 |
PB002965//Pfam-B_2965 | 9 | 0.03289021 |
PF13895.1//Ig_2 | 8 | 0.00039907 |
PF00119.15//ATP-synt_A | 8 | 0.01065053 |
PF13927.1//Ig_3 | 7 | 0.00090571 |
PF00092.23//VWA | 7 | 0.00272518 |
PF07686.12//V-set | 7 | 0.01729404 |
PF03281.9//Mab-21 | 7 | 0.03056683 |
Gene Name | Abbreviation | Reference | E | Amplicon Size (bp) | Tm (°C) | Primers 5′→3′ |
---|---|---|---|---|---|---|
Tropomyosin | TPM | ab000907.1 | 1.90 | 67 | F-55.3 R-57.1 | F-GATGCTGAAAATCGTGCAAC R-CGGTCTACTTCTTTTTGCAACTT |
Ribosomal proteins S4 | rpS4 | Lozano et al. (2015) | 1.83 | 138 | F-58.8 R-60.3 | F-TGGGTTATCGAGGGCGTAG R-TCCCTTAGTTTGTTGAGGACCTG |
18S ribosomal RNA | 18S | L33452.1 | 1.86 | 60 | F-58.3 R-55.9 | F-CCTGGAAAGGTCGGGTAAC R-AATTACAAGCCCCAATCCCTA |
18S ribosomal RNA | 18S-L33448 | Cubero-Leon et al. (2012) | 1.79 | 114 | F-56.3 R-56.0 | F-CATTAGTCAAGAACGAAAGTCAGAG R-GCCTGCCGAGTCATTGAAG |
Glyceraldehyde 3-phosphate-dehydrogenase | GAPDH | Lozano et al. (2015) | 1.92 | 114 | F-59.4 R-58.4 | F-AGGAATGGCCTTCAGGG R-TCAGATGCTGCTTTAATGGCTG |
Elongation Factor 1 | EF1 | Suarez-Ulloa et al. (2013) | 1.89 | 106 | F-55.8 R-57.0 | F-CCTCCCACCATCAAGACCTA R-GGCTGGAGCAAAGGTAACAA |
Big defensin 2 | BD2 | Contig37896 | 1.83 | 110 | F-60.3 R-59.3 | F-TCTGAGCAGGGAGTATCAACAG R-TGGACAAAACAGCTACTAACAAGG |
NADH dehidrogenase subunit 5 | NADH5 | Contig24266 | 1.86 | 90 | F-53.7 R-56.5 | F-GCAGTCATGCGCAAAAAG R-ACCCGGTACAAATATGGCTAAA |
Dynactin-subunit-6-like | DYNA | Contig14551 | 1.89 | 60 | F-58.9 R-58.9 | F-AGTATTCTCAGGCATGGTTTCTG R-GGTTGTATAATTGGAGGCATGTG |
GIY-YIG domain containing protein | GIY-YIG DC | ci|000000744|Bact|Sample_MBC1|2 | 1.83 | 70 | F-57.6 R-55.3 | F-AATCTACCAATTGCTTGTCTGTCA R-CGAAACGTAGTGTGCGAAAA |
KAZAL domain containing protein | KAZAL DC | Contig33832 | 1.91 | 60 | F-53.2 R-60.3 | F-ATAATCGGCAGTGCAAAACA R-TTCCTTACTGAGTCAGTCG |
Cytosolic phospholipase A-2 like | CPLA2 | ci|000001655|Bact|Sample_MBT1|2 | 1.80 | 73 | F-61.6 R-57.1 | F-CCTGTACTGTGAGATTAGGTTATTGC R-CAGAAGGTTATTGACCGAAAGAA |
Arachidonate 15-lipoxygenase B-like | ALOX15B | ci|000023941|Bact|Sample_MBT2|2 | 1.81 | 94 | F-58.5 R-55.9 | F-TGTTGTGAGTGAAGCAATAACTCTAA R-CGGAATAAATCG AGAGAACCA |
Alpha-L-fucosidase-like | FUCA | ci|000010451|Bact|Sample_MBT1|2 | 1.87 | 74 | F-61.0 R-55.3 | F-GGAATTCCAGTAGGAATCAGTAGC R-TGGTAAATGCATACAAACCTGAA |
H_Lectin domain containing protein | H_Lectin DC | Contig19341 | 1.85 | 73 | F-56.5 R-55.3 | F-CCCTTCTTTGCTTTAGATGCTT R-TTGATGGCCAGATTACGACA |
Fibrinogen_C domain containing protein | Fibrinogen_C DC | ci|000024772|Bact|Sample_MBC1|2 | 1.86 | 67 | F-57.3 R-59.4 | F-AAGGTTGTCTCCAGCGTTTC R-CGGTGATGCCTCTACCAACT |
Rank | Normfinder | Stability | BestKeeper | SD | r |
---|---|---|---|---|---|
1 | rpS4 | 0.07 | rpS4 | 0.46 | 0.732 |
2 | TPM | 0.17 | TPM | 0.50 | 0.448 |
3 | GAPDH | 0.20 | GAPDH | 0.64 | 0.669 |
4 | 18S | 0.37 | 18S | 0.71 | 0.827 |
5 | 18S-L33448 | 0.76 | 18S-L33448 | 1.08 | |
6 | EF1 | 1.78 | EF1 | 2.91 |
© 2018 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/).
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Prego-Faraldo, M.V.; Martínez, L.; Méndez, J. RNA-Seq Analysis for Assessing the Early Response to DSP Toxins in Mytilus galloprovincialis Digestive Gland and Gill. Toxins 2018, 10, 417. https://doi.org/10.3390/toxins10100417
Prego-Faraldo MV, Martínez L, Méndez J. RNA-Seq Analysis for Assessing the Early Response to DSP Toxins in Mytilus galloprovincialis Digestive Gland and Gill. Toxins. 2018; 10(10):417. https://doi.org/10.3390/toxins10100417
Chicago/Turabian StylePrego-Faraldo, María Verónica, Luisa Martínez, and Josefina Méndez. 2018. "RNA-Seq Analysis for Assessing the Early Response to DSP Toxins in Mytilus galloprovincialis Digestive Gland and Gill" Toxins 10, no. 10: 417. https://doi.org/10.3390/toxins10100417