Project Summary - RNA-DNA Extractions and Library Prep - Pacu, Mcap, Pcomp - Hawai TPC ENCORE Project

Summary RNA-DNA extractions from fragments of Pocillopora acuta, Montipora capitata, Porites compressa and Library Prep for the Hawaii TPC ENCORE project

This is the project summary for RNA extractions and library preparation for TagSeq sequencing for gene expression analysis. The samples were collected in September 2023 as part of the ENCORE TPC-PI experiment. Libraries were prepared using the Zymo-Seq SwitchFree 3′ mRNA Library Kit and sent for sequencing.

Outline of Content

Extractions

Extraction and Quality Check Protocols

Extraction of 2024-12-16

  • Link to extraction post

Qubit Results

  • Standard 1: 485.09
  • Standard 2: 10423.38
Clipping date   Extraction date   colony_id   Species   Temp.Cat   RNA_read1   RNA_read2   RNA_AVG (ng/ul)
20241203   20241216   Pcom-H7   Porites compressa   35   31.8   30.4   31.1
20241203   20241216   Mcap-F7   Montipora capitata   35   21.6   20.8   21.2
20241202   20241216   Pacu-F10   Pocillopora acuta   26.8   14.4   14.4   14.4
20241129   20241216   Pacu-B6   Pocillopora acuta   12   23.2   22.2   22.7
  • Standard 1: 459.78
  • Standard 2: 10345.31
Clipping date   Extraction date   colony_id   Species   Temp.Cat   RNA_read1   RNA_read2   RNA_AVG (ng/ul)
20241129   20241216   Mcap-G6   Montipora capitata   12   26.8   25.4   26.1
20241203   20241216   Pcom-B8   Porites compressa   25   43.6   40.4   42.0
20241203   20241216   Pcom-H8   Porites compressa   25   53.2   54.4   53.8
20241203   20241216   Pacu-B9   Pocillopora acuta   30   40.2   37.0   38.6

Gel

Gel_DNA_RNA_16Dec2024.png

Extraction of 2024-12-15

  • Link to extraction post

Qubit Results

  • Standard 1: 440.45
  • Standard 2: 9772.55
Clipping date   Extraction date   colony_id   Species   Temp.Cat   RNA_read1   RNA_read2   RNA_AVG (ng/ul)
20241129   20241215   Mcap-E6   Montipora capitata   12   28.6   27.8   28.2
20241202   20241215   Pcom-B10   Porites compressa   26.8   80.6   80.2   80.4
20241129   20241215   Pacu-E6   Pocillopora acuta   12   99.2   98.2   98.7
20241203   20241215   Pacu-G8   Pocillopora acuta   25   58.6   57.8   58.2
  • Standard 1: 469.58
  • Standard 2: 11090.29
Clipping date   Extraction date   colony_id   Species   Temp.Cat   RNA_read1   RNA_read2   RNA_AVG (ng/ul)
20241129   20241215   Pcom-G7   Porites compressa   35   80.6   80.0   80.3
20241203   20241215   Pacu-H7   Pocillopora acuta   35   37.2   36.0   36.6
20241129   20241215   Mcap-F6   Montipora capitata   12   16.6   16.0   16.3
20241129   20241215   Mcap-G10   Montipora capitata   12   14.6   14.6   14.6

Gel

Gel_DNA_RNA_15Dec2024.png

Extraction of 2024-12-13

  • Link to extraction post

Qubit Results

  • Standard 1: 448.39
  • Standard 2: 10241.59
Clipping date   Extraction date   colony_id   Species   Temp.Cat   RNA_read1   RNA_read2   RNA_AVG (ng/ul)
20241202   20241213   Mcap-G11   Montipora capitata   26.8   13.8   14.2   14.0
20241203   20241213   Pcom-F9   Porites compressa   30   47.0   46.6   46.8
20241202   20241213   Pacu-B10   Pocillopora acuta   26.8   155.0   152.0   153.5
20241129   20241213   Pacu-G6   Pocillopora acuta   12   45.0   42.6   43.8
  • Standard 1: 481.35
  • Standard 2: 10471.26
Clipping date   Extraction date   colony_id   Species   Temp.Cat   RNA_read1   RNA_read2   RNA_AVG (ng/ul)
20241203   20241213   Mcap-H7   Montipora capitata   35   43.2   42.6   42.9
20241202   20241213   Mcap-E1   Montipora capitata   18   48.8   48.6   48.7
20241203   20241213   Pacu-G9   Pocillopora acuta   30   14.0   13.8   13.9
20241129   20241213   Pcom-E6   Porites compressa   12   24.4   24.2   24.3

Gel

Gel_DNA_RNA_13Dec2024.png

Extraction of 2024-12-12

  • Link to extraction post

Qubit Results

  • Standard 1: 442.30
  • Standard 2: 9977.41
Clipping date   Extraction date   colony_id   Species   Temp.Cat   RNA_read1   RNA_read2   RNA_AVG (ng/ul)
20241129   20241211   Pcom-G6   Porites compressa   12   35.8   35.8   35.8
20241203   20241211   Pcom-E9   Porites compressa   30   45.8   46.0   45.9
20241203   20241211   Pacu-F9   Pocillopora acuta   30   34.8   33.4   34.1
20241202   20241211   Mcap-F1   Montipora capitata   18   17.0   17.6   17.3
  • Standard 1: 459.58
  • Standard 2: 11825.83
Clipping date   Extraction date   colony_id   Species   Temp.Cat   RNA_read1   RNA_read2   RNA_AVG (ng/ul)
20241203   20241212   Pcom-F7   Porites compressa   35   43.4   43.4   43.4
20241203   20241212   Mcap-E7   Montipora capitata   35   57.6   56.8   57.2
20241203   20241212   Mcap-F9   Montipora capitata   30   17.4   16.4   16.9
20241202   20241212   Pacu-F11   Pocillopora acuta   26.8   19.0   19.0   19.0

Gel

Gel_DNA_RNA_12Dec2024.png

Extraction of 2024-12-11

  • Link to extraction post

Qubit Results

  • Standard 1: 443.13
  • Standard 2: 9738.43
Clipping date   Extraction date   colony_id   Species   Temp.Cat   RNA_read1   RNA_read2   RNA_AVG (ng/ul)
20241202   20241211   Pcom-B1   Porites compressa   18   23.8   26.2   25.0
20241202   20241211   Mcap-H10   Montipora capitata   26.8   24.4   23.0   23.7
20241203   20241211   Pacu-E7   Montipora capitata   35   41.8   41.0   41.4
20241129   20241211   Pacu-F6   Pocillopora acuta   12   45.8   43.8   44.8
  • Standard 1: 437.49
  • Standard 2: 10800.73
Clipping date   Extraction date   colony_id   Species   Temp.Cat   RNA_read1   RNA_read2   RNA_AVG (ng/ul)
20241203   20241211   Pcom-B9   Porites compressa   30   33.2   33.0   33.1
20241203   20241211   Mcap-H8   Montipora capitata   25   11.4   10.8   11.1
20241203   20241211   Pacu-B7   Pocillopora acuta   35   47.0   48.6   47.8
20241203   20241211   Mcap-G8   Montipora capitata   25   13.4   11.0   12.2

Gel

Gel_DNA_RNA_11Dec2024.png

Extraction of 2024-12-10

  • Link to extraction post

Qubit Results

  • Standard 1: 445.16
  • Standard 2: 9603.57
Clipping date   Extraction date   colony_id   Species   Temp.Cat   RNA_read1   RNA_read2   RNA_AVG (ng/ul)
20241129   20241210   Pacu-H6   Pocillopora acuta   12   36.6   36.4   36.5
20241203   20241210   Pcom-H9   Porites compressa   30   47.6   46.6   47.1
20241203   20241210   Mcap-G9   Montipora capitata   30   16.8   16.4   16.6
20241129   20241210   Mcap-H6   Montipora capitata   12   22.0   21.6   21.8
  • Standard 1: 451.33
  • Standard 2: 10324.23
Clipping date   Extraction date   colony_id   Species   Temp.Cat   RNA_read1   RNA_read2   RNA_AVG (ng/ul)
20241202   20241210   Mcap-E10   Montipora capitata   26.8   21.2   20.6   20.9
20241129   20241210   Pcom-F6   Porites compressa   12   56.4   55.6   56.0
20241203   20241210   Pacu-G7   Pocillopora acuta   35   39.4   38.6   39.0
20241202   20241210   Pcom-H1   Porites compressa   18   17.4   17.2   17.3

Gel

Gel_DNA_RNA_10Dec2024.png

Extraction of 2024-12-09

  • Link to extraction post

Qubit Results

  • Standard 1: 432.49
  • Standard 2: 8043.39
Clipping date   Extraction date   colony_id   Species   Temp.Cat   RNA_read1   RNA_read2   RNA_AVG (ng/ul)
20241129   20241209   Pacu-H6   Pocillopora acuta   12   LOW   LOW    
20241202   20241209   Mcap-B1   Montipora capitata   18   18.8   18.4   18.6
20241203   20241209   Mcap-E9   Montipora capitata   30   22.8   22.4   22.6
20241203   20241209   Pcom-E8   Porites compressa   25   49.0   47.2   48.1
  • Standard 1: 464.66
  • Standard 2: 8636.78
Clipping date   Extraction date   colony_id   Species   Temp.Cat   RNA_read1   RNA_read2   RNA_AVG (ng/ul)
20241203   20241209   Mcap-F8   Montipora capitata   25   29.4   28.8   29.1
20241203   20241209   Pcom-G9   Porites compressa   30   64.0   61.8   62.9
20241202   20241209   Pcom-F10   Porites compressa   26.8   44.0   44.0   44.0
20241202   20241209   Pacu-E8   Pocillopora acuta   25   26.0   25.6   25.8
  • Note: Pacu-H6 re-extracted the day after

Gel

Gel_DNA_RNA_09Dec2024.png

Extraction of 2024-12-06

  • Link to extraction post

Qubit Results

  • Standard 1: 445.69
  • Standard 2: 10670.05
Clipping date   Extraction date   colony_id   Species   Temp.Cat   RNA_read1   RNA_read2   RNA_AVG (ng/ul)
20241203   20241206   Pacu-H9   Pocillopora acuta   30   50.0   49.0   49.5
20241203   20241206   Pacu-F7   Pocillopora acuta   35   34.8   34.0   34.4
20241202   20241206   Mcap-F10   Montipora capitata   26.8   14.2   13.4   13.8
20241202   20241206   Pcom-H10   Porites compressa   26.8   54.8   53.8   108.6
  • Standard 1: 443.80
  • Standard 2: 10988.70
Clipping date   Extraction date   colony_id   Species   Temp.Cat   RNA_read1   RNA_read2   RNA_AVG (ng/ul)
20241202   20241206   Pcom-G10   Porites compressa   26.8   53.2   50.4   51.8
20241202   20241206   Pacu-B1   Pocillopora acuta   18   38.4   36.2   37.3
20241129   20241206   Mcap-B6   Montipora capitata   12   13.2   12.6   12.9
20241202   20241206   Mcap-B10   Montipora capitata   26.8   14.2   10.0   12.1

Gel

Gel_DNA_RNA_06Dec2024.png

Extraction of 2024-12-05

  • Link to extraction post

Qubit Results

  • Standard 1: 432.51
  • Standard 2: 10683.02
Clipping date   Extraction date   colony_id   Species   Temp.Cat   RNA_read1   RNA_read2   RNA_AVG (ng/ul)
20241202   20241205   Pacu-H8   Pocillopora acuta   25   27.4   26.8   27.1
20241202   20241205   Pacu-G1   Pocillopora acuta   18   61.0   59.6   60.3
20241203   20241205   Mcap-H9   Montipora capitata   30   28.4   26.8   27.6
20241129   20241205   Pcom-H6   Porites compressa   12   16.4   16.0   16.2
  • Standard 1: 496.25
  • Standard 2: 10161.14
Clipping date   Extraction date   colony_id   Species   Temp.Cat   RNA_read1   RNA_read2   RNA_AVG (ng/ul)
20241129   20241205   Pcom-B6   Porites compressa   12   23.0   19.4   21.2
20241203   20241205   Mcap-B9   Montipora capitata   30   19.0   18.4   18.7
20241203   20241205   Mcap-G7   Montipora capitata   35   18.6   17.0   17.8
20241202   20241205   Pacu-G10   Pocillopora acuta   26.8   30.0   29.8   29.9

Gel

Gel_DNA_RNA_05Dec2024.png

Extraction of 2024-12-04

  • Link to extraction post

Qubit Results

  • Standard 1: 435.27
  • Standard 2: 9432.82
Clipping date   Extraction date   colony_id   Species   Temp.Cat   RNA_read1   RNA_read2   RNA_AVG (ng/ul)
20241203   20241204   Pacu-B8   Pocillopora acuta   25   23.6   23.4   23.5
20241203   20241204   Mcap-B7   Montipora capitata   35   24.4   23.0   24.2
20241202   20241204   Pcomp-G1   Porites compressa   18   31.6   30.2   30.9
20241129   20241204   Mcap-G6   Montipora capitata   12   21.4   21.0   21.2
  • Standard 1: 469.49
  • Standard 2: 10098.72
Clipping date   Extraction date   colony_id   Species   Temp.Cat   RNA_read1   RNA_read2   RNA_AVG (ng/ul)
20241203   20241204   Pacu-E9   Pocillopora acuta   30   64.4   63.6   64.0
20241202   20241204   Mcap-G1   Montipora capitata   18   54.4   53.4   53.9
20241202   20241204   Pcom-E1   Porites compressa   18   18.8   18.6   18.7
20241203   20241204   Pcom-B7   Porites compressa   35   22.8   22.4   22.6

Gel

Gel_DNA_RNA_04Dec2024.png

Extraction of 2024-11-30

  • Link to extraction post

Qubit Results

  • Standard 1:433.38
  • Standard 2: 9549.36
Clipping date   Extraction date   colony_id   Species   Temp.Cat   RNA_read1   RNA_read2   RNA_AVG (ng/ul)
20241130   20241130   Pacu-H1   Pocillopora acuta   18   20.8   20.2   20.5
20241130   20241130   Mcap-H1   Montipora capitata   18   41.6   41.4   41.5
20241130   20241130   Pcomp-G8   Porites compressa   25   36.2   36.0   36.1
20241130   20241130   Mcap-E8   Montipora capitata   25   25.6   25.2   25.4

Gel

Gel_DNA_RNA_30Nov2024.png

Extraction of 2024-11-15

  • Link to extraction post

Qubit Results

Extraction date   colony_id   Species   Temp.Cat   RNA_QBIT_AVG
20241116   Mcap-B8   Montipora capitata   25   13.8
20241114   Pacu-H10   Pocillopora acuta   26.8   19.5
20241116   Mcap-D10   Montipora capitata   26.8   17.6
20241116   Pacu-F8   Pocillopora acuta   25   17.9
20241116   Pcomp-F8   Porites compressa   25   14.4
20241119   Pcomp-E10   Porites compressa   26.8   27.2

Gel

  • Note: these samples where checked on TapeStation as well for RNA quality

Gel_DNA_RNA_21Nov2024.png

Library prep

Library Prep and Quality Check Protocols

Library prep of 2024-11-21

Input RNA volumes for each sample

colony_id RNA_QBIT_AVG (ng/uL) RNA (uL) Ultrapure water (uL) Total starting volume (ul)
Pacu-H10 13.8 0.67 4.33 5.0
Pcomp-E10 27.2 0.48 4.52 5.0
Mdec-D1 27.3 0.48 4.52 5.0
Mcav-F1 34.4 0.38 4.62 5.0
Mcav-A6 15.1 0.86 4.14 5.0
Dlab-B6 15.4 0.84 4.16 5.0
Mcap-D10 17.6 0.74 4.26 5.0

TapeStation

Library prep date colony_id Species Temp TapeStation conc. Primer set
20241120 Pacu-H10 Pocillopora acuta 26.8 22.1 1
20241120 Pcomp-E10 Porites compressa 26.8 6.52 2
20241121 Mdec-D1 Madracis decactis 29 8.01 3
20241121 Mcav-F1 Montastraea cavernosa 29 Below 1 4
20241122 Mcav-A6 Montastraea cavernosa 26 Below 1 5
20241122 Dlab-B6 Diploria labyrinthiformis 26 1.97 6
20241122 Mcap-D10 Montipora capitata 26.8 8.28 7

LibraryPrepZymo1.png

LibraryPrepZymo2.png

LibraryPrepZymo3.png

Library prep of 2025-01-10

Input RNA volumes for each sample

sample_id   RNA_QBIT_AVG (ng/uL)   RNA (uL)   Ultrapure water (uL)   Total input RNA (ng)
Pacu-H10   19.5   2.85   2.15   55.5
Mcap-H1   41.5   1.34   3.66   55.5
Pcomp-G8   36.1   1.54   3.46   55.5
Mcap-E8   25.4   2.19   2.81   55.5
Pacu-B8   23.5   2.36   2.64   55.5
Mcap-B7   24.2   2.29   2.71   55.5
Pcomp-G1   30.9   1.80   3.20   55.5
Pacu-E9   64.0   0.87   4.13   55.5

Qubit

  • Standard 1: 181.49
  • Standard 2: 30941.59
QBIT date   sample_id   Species   Temp   DNA read1   DNA read2   DNA_AVG (ng/ul)
20250110   Pacu-H10   Pocillopora acuta   26.8   8   8.38   8.19
20250110   Mcap-H1   Montipora capitata   18   LOW   LOW   LOW
20250110   Pcomp-G8   Porites compressa   25   6.14   5.76   5.95
20250110   Mcap-E8   Montipora capitata   25   LOW   LOW   LOW
20250110   Pacu-B8   Pocillopora acuta   25   2.86   2.94   2.9
20250110   Mcap-B7   Montipora capitata   35   2.50   2.86   2.68
20250110   Pcomp-G1   Porites compressa   18   3.6   3.64   3.62
20250110   Pacu-E9   Pocillopora acuta   30   LOW   LOW   LOW

TapeStation

TapeStation date   sample_id   Species   Temp   TapeStation conc.   Primer set
20250110   Pacu-H10   Pocillopora acuta   26.8   7.12   3
20250110   Mcap-H1   Montipora capitata   18   1.85   4
20250110   Pcomp-G8   Porites compressa   25   5.38   5
20250110   Mcap-E8   Montipora capitata   25   2.01   6
20250110   Pacu-B8   Pocillopora acuta   25   2.77   8
20250110   Mcap-B7   Montipora capitata   35   2.94   9
20250110   Pcomp-G1   Porites compressa   18   4.06   10
20250110   Pacu-E9   Pocillopora acuta   30   1.98   11

LibraryPrepZymoRun1.png

Library prep of 2025-01-11

Input RNA volumes for each sample

sample_id   RNA_QBIT_AVG (ng/uL)   RNA (uL)   Ultrapure water (uL)   Total input RNA (ng)
Pacu-E9   64.0   0.87   4.13   55.5
Pacu-H1   20.5   2.71   2.29   55.5
Mcap-G1   53.9   1.03   3.97   55.5
Pcom-E1   18.7   2.97   2.03   55.5
Pcom-B7   22.6   2.46   2.54   55.5
Pacu-H8   27.1   2.05   2.95   55.5
Pacu-G1   60.3   0.92   4.08   55.5
Pcom-E10   27.2   2.04   2.96   55.5

Qubit

  • Standard 1: 70.26
  • Standard 2: 26525.05
QBIT date   sample_id   Species   Temp   DNA read1   DNA read2   DNA_AVG (ng/ul)
20250111   Pacu-E9   Pocillopora acuta   30   1.79   1.75   1.77
20250111   Pacu-H1   Pocillopora acuta   18   1.77   1.79   1.78
20250111   Mcap-G1   Montipora capitata   18   0.708   0.688   0.698
20250111   Pcom-E1   Porites compressa   18   5.00   4.9   4.95
20250111   Pcom-B7   Porites compressa   35   4.48   4.34   4.41
20250111   Pacu-H8   Pocillopora acuta   25   3.31   3.17   3.24
20250111   Pacu-G1   Pocillopora acuta   18   1.11   1.07   1.09
20250111   Pcom-E10   Porites compressa   26.8   3.33   3.29   3.31

TapeStation

TapeStation date   sample_id   Species   Temp   TapeStation conc.   Primer set
20250111   Pacu-E9   Pocillopora acuta   30   3.71   11
20250111   Pacu-H1   Pocillopora acuta   18   2.84   12
20250111   Mcap-G1   Montipora capitata   18   1.02   13
20250111   Pcom-E1   Porites compressa   18   5.80   14
20250111   Pcom-B7   Porites compressa   35   4.77   15
20250111   Pacu-H8   Pocillopora acuta   25   4.38   16
20250111   Pacu-G1   Pocillopora acuta   18   1.41   17
20250111   Pcom-E10   Porites compressa   26.8   5.19   18

LibraryPrepZymoRun2.png

Library prep of 2025-01-13

Input RNA volumes for each sample

sample_id   RNA_QBIT_AVG (ng/uL)   RNA (uL)   Ultrapure water (uL)   Total input RNA (ng)
Pacu-H1   20.5   0.64   4.37   13
Pacu-F8   17.9   0.73   4.27   13
Pcom-F8   14.4   0.90   4.10   13
Mcap-G6   21.2   0.61   4.39   13
Mcap-H9   27.6   0.47   4.53   13
Pcom-H6   16.2   0.80   4.20   13
Pcom-B6   21.2   0.61   4.39   13
Mcap-B9   18.7   0.70   4.30   13

Qubit

  • Standard 1: 70.54
  • Standard 2: 27629.65
QBIT date   sample_id   Species   Temp   DNA read1   DNA read2   DNA_AVG (ng/ul)
20250113   Pacu-H1   Pocillopora acuta   18   0.476   0.376   0.426
20250113   Pacu-F8   Pocillopora acuta   25   1.06   0.91   0.985
20250113   Pcom-F8   Porites compressa   25   3.31   2.99   3.15
20250113   Mcap-G6   Montipora capitata   12   2.61   2.31   2.46
20250113   Mcap-H9   Montipora capitata   30   1.31   1.18   1.245
20250113   Pcom-H6   Porites compressa   12   1.68   1.57   1.625
20250113   Pcom-B6   Porites compressa   12   LOW   LOW   LOW
20250113   Mcap-B9   Montipora capitata   30   0.299   0.301   0.3

TapeStation

TapeStation date   sample_id   Species   Temp   TapeStation conc.   Primer set
20250113   Pacu-H1   Pocillopora acuta   18   0.746   12
20250113   Pacu-F8   Pocillopora acuta   25   1.84   19
20250113   Pcom-F8   Porites compressa   25   5.02   20
20250113   Mcap-G6   Montipora capitata   12   4.55   21
20250113   Mcap-H9   Montipora capitata   30   2.48   22
20250113   Pcom-H6   Porites compressa   12   2.88   23
20250113   Pcom-B6   Porites compressa   12   0.034   24
20250113   Mcap-B9   Montipora capitata   30   0.6   25

LibraryPrepZymoRun3.png

Library prep of 2025-01-14

Input RNA volumes for each sample

sample_id   RNA_QBIT_AVG (ng/uL)   RNA (uL)   Ultrapure water (uL)   Total input RNA (ng)
Mcap-H1   41.5   0.6   4.4   25
Mcap-G7   17.8   1.4   3.6   25
Pacu-G10   29.9   0.84   4.16   25
Pacu-H9   49.5   0.51   4.49   25
Pacu-F7   34.4   0.73   4.27   25
Mcap-F10   13.8   1.81   3.19   25

Qubit

  • Standard 1: 81.16
  • Standard 2: 27173.68
QBIT date   sample_id   Species   Temp   DNA read1   DNA read2   DNA_AVG (ng/ul)
20250114   Mcap-H1   Montipora capitata   18   6.32   6.51   6.415
20250114   Mcap-G7   Montipora capitata   35   1.51   1.47   1.49
20250114   Pacu-G10   Pocillopora acuta   26.8   5.38   5.17   5.275
20250114   Pacu-H9   Pocillopora acuta   30   8.33   8.12   8.225
20250114   Pacu-F7   Pocillopora acuta   35   3.95   3.79   3.87
20250114   Mcap-F10   Montipora capitata   26.8   1.15   1.05   1.10

TapeStation

TapeStation date   sample_id   Species   Temp   TapeStation conc.   Primer set
20250114   Mcap-H1   Montipora capitata   18   7.93   4
20250114   Mcap-G7   Montipora capitata   35   2.68   26
20250114   Pacu-G10   Pocillopora acuta   26.8   5.73   27
20250114   Pacu-H9   Pocillopora acuta   30   10.0   28
20250114   Pacu-F7   Pocillopora acuta   35   6.37   29
20250114   Mcap-F10   Montipora capitata   26.8   null   30

LibraryPrepZymoRun4.png

Library prep of 2025-01-15

Input RNA volumes for each sample

sample_id   RNA_QBIT_AVG (ng/uL)   RNA (uL)   Ultrapure water (uL)   Total input RNA (ng)
Pcom-H10   54.0   0.42   4.77   25
Pcom-G10   51.8   0.48   4.52   25
Pacu-B1   37.3   0.67   4.33   25
Mcap-B6   12.9   1.94   3.06   25
Mcap-B10   12.1   2.07   2.93   25
Mcap-B1   18.6   1.34   3.66   25
Mcap-E9   22.6   1.11   3.89   25
Pcom-E8   48.1   0.52   4.48   25

Qubit

QBIT date   sample_id   Species   Temp   DNA read1   DNA read2   DNA_AVG (ng/ul)
20250115   Pcom-H10   Porites compressa   26.8   2.26   2.26   2.26
20250115   Pcom-G10   Porites compressa   26.8   1.2   1.22   1.21
20250115   Pacu-B1   Pocillopora acuta   18   1.41   1.38   1.395
20250115   Mcap-B6   Montipora capitata   12   1.66   1.62   1.64
20250115   Mcap-B10   Montipora capitata   26.8   1.4   1.35   1.375
20250115   Mcap-B1   Montipora capitata   18   1.45   1.40   1.425
20250115   Mcap-E9   Montipora capitata   30   0.789   0.77   0.7795
20250115   Pcom-E8   Porites compressa   25   1.62   1.55   1.585

TapeStation

TapeStation date   sample_id   Species   Temp   TapeStation conc.   Primer set
20250115   Pcom-H10   Porites compressa   26.8   4.07   31
20250115   Pcom-G10   Porites compressa   26.8   1.8   32
20250115   Pacu-B1   Pocillopora acuta   18   1.94   33
20250115   Mcap-B6   Montipora capitata   12   2.87   34
20250115   Mcap-B10   Montipora capitata   26.8   1.91   35
20250115   Mcap-B1   Montipora capitata   18   2.35   36
20250115   Mcap-E9   Montipora capitata   30   1.07   37
20250115   Pcom-E8   Porites compressa   25   3.12   38

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Library prep of 2025-01-22

Input RNA volumes for each sample

sample_id   RNA_QBIT_AVG (ng/uL)   RNA (uL)   Ultrapure water (uL)   Total input RNA (ng)
Mcap-F8   29.1   1.03   3.97   30
Pcom-G9   62.9   0.48   4.52   30
Pcom-F10   44.0   0.68   4.32   30
Pacu-E8   25.8   1.16   3.84   30
Pacu-H6   36.5   0.82   4.18   30
Pcom-H9   47.1   0.64   4.36   30

Qubit

QBIT date   sample_id   Species   Temp   DNA read1   DNA read2   DNA_AVG (ng/ul)
20250122   Mcap-F8   Montipora capitata   25   0.362   0.342   0.352
20250122   Pcom-G9   Porites compressa   30   0.891   0.860   0.8755
20250122   Pcom-F10   Pocillopora acuta   26.8   1.46   1.40   1.43
20250122   Pacu-E8   Pocillopora acuta   25   0.176   0.163   0.1695
20250122   Pacu-H6   Pocillopora acuta   12   0.214   0.195   0.2045
20250122   Pcom-H9   Porites compressa   30   0.371   0.353   0.362

TapeStation

TapeStation date   sample_id   Species   Temp   TapeStation conc.   Primer set
20250122   Mcap-F8   Montipora capitata   25   0.577   39
20250122   Pcom-G9   Porites compressa   30   1.36   40
20250122   Pcom-F10   Pocillopora acuta   26.8   2.41   41
20250122   Pacu-E8   Pocillopora acuta   25   0.183   42
20250122   Pacu-H6   Pocillopora acuta   12   0.302   43
20250122   Pcom-H9   Porites compressa   30   0.315   44

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Library prep of 2025-01-23

Input RNA volumes for each sample

sample_id   RNA_QBIT_AVG (ng/uL)   RNA (uL)   Ultrapure water (uL)   Total input RNA (ng)
Mcap-G9   16.6   1.2   3.8   20
Mcap-H6   21.8   0.92   4.08   20
Mcap-E10   20.9   0.96   4.04   20
Pcom-F6   56.0   0.36   4.64   20
Pacu-G7   39.0   0.51   4.49   20
Pcom-H1   17.3   1.16   3.84   20

Qubit

QBIT date   sample_id   Species   Temp   DNA read1   DNA read2   DNA_AVG (ng/ul)
20250123   Mcap-G9   Montipora capitata   30   0.479   0.466   0.4725
20250123   Mcap-H6   Montipora capitata   12   2.45   2.33   2.39
20250123   Mcap-E10   Montipora capitata   26.8   1.25   1.22   1.235
20250123   Pcom-F6   Porites compressa   12   4.11   4.0   4.055
20250123   Pacu-G7   Pocillopora acuta   35   14.2   13.8   14.0
20250123   Pcom-H1   Porites compressa   18   4.95   4.74   4.845

TapeStation

TapeStation date   sample_id   Species   Temp   TapeStation conc.   Primer set
20250123   Mcap-G9   Montipora capitata   30   0.491   45
20250123   Mcap-H6   Montipora capitata   12   3.11   46
20250123   Mcap-E10   Montipora capitata   26.8   1.96   47
20250123   Pcom-F6   Porites compressa   12   5.50   48
20250123   Pacu-G7   Pocillopora acuta   35   7.66   49
20250123   Pcom-H1   Porites compressa   18   7.14   50

LibraryPrepZymoRun7.png

Library prep of 2025-01-24

Input RNA volumes for each sample

sample_id   RNA_QBIT_AVG (ng/uL)   RNA (uL)   Ultrapure water (uL)   Total input RNA (ng)
Mcap-F8   29.1   0.69   4.31   20
Pcom-G9   62.9   0.32   4.68   20
Pcom-F10   44.0   0.45   4.55   20
Pacu-E8   25.8   0.78   4.22   20
Pacu-H6   36.5   0.55   4.45   20
Pcom-H9   47.1   0.42   4.58   20

Qubit

QBIT date   sample_id   Species   Temp   DNA read1   DNA read2   DNA_AVG (ng/ul)
20250124   Mcap-F8   Montipora capitata   25   0.057   0.051   0.054
20250124   Pcom-G9   Porites compressa   30   LOW   LOW    
20250124   Pcom-F10   Pocillopora acuta   26.8   LOW   LOW    
20250124   Pacu-E8   Pocillopora acuta   25   LOW   LOW    
20250124   Pacu-H6   Pocillopora acuta   12   0.072   0.07   0.071
20250124   Pcom-H9   Porites compressa   30   LOW   LOW    

*LOW: out of range

TapeStation

TapeStation date   sample_id   Species   Temp   TapeStation conc.   Primer set
20250124   Mcap-F8   Montipora capitata   25   0   39
20250124   Pcom-G9   Porites compressa   30   0   40
20250124   Pcom-F10   Montipora capitata   26.8   0   41
20250124   Pacu-E8   Porites compressa   12   0   42
20250124   Pacu-H6   Pocillopora acuta   35   0   43
20250124   Pcom-H9   Porites compressa   18   0.054   44

LibPrepRun8_complete.png

Library prep of 2025-01-28

Input RNA volumes for each sample

sample_id   RNA_QBIT_AVG (ng/uL)   RNA (uL)   Ultrapure water (uL)   Total input RNA (ng)
Pcom-B1   25   0.80   4.20   51
Mcap-H10   23.7   0.84   4.16   52
Pacu-E7   41.4   0.48   4.52   53
Pacu-F6   44.8   0.45   4.55   54
Pcom-B9   33.1   0.60   4.40   55
Mcap-H8   11.1   1.80   3.20   56

Qubit

QBIT date   sample_id   Species   Temp   DNA read1   DNA read2   DNA_AVG (ng/ul)
20250128   Pcom-B1   Porites compressa   18   6.21   5.87   6.04
20250128   Mcap-H10   Montipora capitata   26.8   3.21   3.06   3.14
20250128   Pacu-E7   Pocillopora acuta   35   17.8   17.2   17.5
20250128   Pacu-F6   Pocillopora acuta   12   6.19   5.94   6.07
20250128   Pcom-B9   Porites compressa   30   15.3   14.4   14.85
20250128   Mcap-H8   Montipora capitata   25   5.64   5.22   5.43

TapeStation

TapeStation date   sample_id   Species   Temp   TapeStation conc.   Primer set
20250128   Pcom-B1   Porites compressa   18   7.22   51
20250128   Mcap-H10   Montipora capitata   26.8   3.90   52
20250128   Pacu-E7   Pocillopora acuta   35   23.8   53
20250128   Pacu-F6   Pocillopora acuta   12   10.1   54
20250128   Pcom-B9   Porites compressa   30   18.8   55
20250128   Mcap-H8   Montipora capitata   25   7.05   56

LibraryPrepZymoRun9.png

Library prep of 2025-02-05

Input RNA volumes for each sample

sample_id   RNA_QBIT_AVG (ng/uL)   RNA (uL)   Ultrapure water (uL)   Total input RNA (ng)
Pcom-G10   13.0   1.54   3.46   20
Pcom-F8   17.8   1.12   3.88   20
Pacu-H1   11.5   1.74   3.26   20
Pacu-D8   13.3   1.57   3.43   20
Mcap-G1   12.7   1.60   3.40   20
Mcap-F10   12.5   1.50   3.50   20

Qubit

QBIT date   sample_id   Species   Temp   DNA read1   DNA read2   DNA_AVG (ng/ul)
20250205   Pcom-G10   Porites compressa   26.8   0.222   0.210   0.216
20250205   Pcom-F8   Porites compressa   25   too low   too low   too low
20250205   Pacu-H1   Pocillopora acuta   18   0.699   0.701   0.700
20250205   Pacu-D8   Pocillopora acuta   25   too low   too low   too low
20250205   Mcap-G1   Montipora capitata   18   0.432   0.430   0.431
20250205   Mcap-F10   Montipora capitata   26.8   0.439   0.426   0.4325

TapeStation

TapeStation date   sample_id   Species   Temp   TapeStation conc.   Primer set
20250205   Pcom-G10   Porites compressa   26.8   0.208   20
20250205   Pcom-F8   Porites compressa   25       32
20250205   Pacu-H1   Pocillopora acuta   18   1.41   12
20250205   Pacu-D8   Pocillopora acuta   25       13
20250205   Mcap-G1   Montipora capitata   18   0.508   30
20250205   Mcap-F10   Montipora capitata   26.8   0.389   57

Library prep of 2025-02-12

Input RNA volumes for each sample

sample_id   RNA_QBIT_AVG (ng/uL)   RNA (uL)   Ultrapure water (uL)   Total input RNA (ng)
Pcom-G6   35.8   0.56   4.44   20
Pcom-E9   45.9   0.44   4.56   20
Pacu-F9   34.1   0.59   4.41   20
Mcap-F1   17.3   1.16   3.84   20
Pcom-F7   43.4   0.46   4.54   20
Mcap-E7   57.2   0.35   4.65   20
Mcap-F9   16.9   1.18   3.82   20
Pacu-F11   19   1.05   3.95   20

Qubit

QBIT date   sample_id   Species   Temp   DNA read1   DNA read2   DNA_AVG (ng/ul)
20250205   Pcom-G10   Porites compressa   26.8   0.222   0.210   0.216
20250205   Pcom-F8   Porites compressa   25   too low   too low   too low
20250205   Pacu-H1   Pocillopora acuta   18   0.699   0.701   0.700
20250205   Pacu-D8   Pocillopora acuta   25   too low   too low   too low
20250205   Mcap-G1   Montipora capitata   18   0.432   0.430   0.431
20250205   Mcap-F10   Montipora capitata   26.8   0.439   0.426   0.4325

TapeStation

TapeStation date   sample_id   Species   Temp   TapeStation conc.   Primer set
20250205   Pcom-G10   Porites compressa   26.8   0.208   20
20250205   Pcom-F8   Porites compressa   25       32
20250205   Pacu-H1   Pocillopora acuta   18   1.41   12
20250205   Pacu-D8   Pocillopora acuta   25       13
20250205   Mcap-G1   Montipora capitata   18   0.508   30
20250205   Mcap-F10   Montipora capitata   26.8   0.389   57

LibraryPrepZymoRun11.png

Library prep of 2025-02-13

Input RNA volumes for each sample

sample_id   RNA_QBIT_AVG (ng/uL)   RNA (uL)   Ultrapure water (uL)   Total input RNA (ng)
Mcap-G11   14   1.79   3.21   25
Pcom-F9   46.8   0.53   4.47   25
Pacu-B10   153.5   0.16   4.84   25
Pacu-G6   43.8   0.57   4.43   25
Mcap-H7   42.9   0.58   4.42   25
Mcap-E1   48.7   0.51   4.49   25
Pacu-G9   13.9   1.80   3.20   25
Pcom-E6   24.3   1.03   3.97   25

Qubit

QBIT date   sample_id   Species   Temp   DNA read1   DNA read2   DNA_AVG (ng/ul)
20250213   Mcap-G11   Montipora capitata   26.8   0.826   0.786   0.806
20250213   Pcom-F9   Porites compressa   30   0.289   0.278   0.284
20250213   Pacu-B10   Pocillopora acuta   26.8   1.52   1.43   1.475
20250213   Pacu-G6   Pocillopora acuta   12   0.784   0.699   0.742
20250213   Mcap-H7   Montipora capitata   35   2.68   2.58   2.63
20250213   Mcap-E1   Montipora capitata   18   5.10   4.84   4.97
20250213   Pacu-G9   Pocillopora acuta   30   2.3   2.25   2.275
20250213   Pcom-E6   Porites compressa   12   0.403   0.380   0.392

TapeStation

TapeStation date   sample_id   Species   Temp   TapeStation conc.   Primer set
20250213   Mcap-G11   Montipora capitata   26.8   1.63   67
20250213   Pcom-F9   Porites compressa   30   0.198   68
20250213   Pacu-B10   Pocillopora acuta   26.8   2.41   69
20250213   Pacu-G6   Pocillopora acuta   12   1.26   70
20250213   Mcap-H7   Montipora capitata   35   4.48   71
20250213   Mcap-E1   Montipora capitata   18   5.67   72
20250213   Pacu-G9   Pocillopora acuta   30   5.96   73
20250213   Pcom-E6   Porites compressa   12   0.599   74

LibraryPrepZymoRun12.png

Written on December 16, 2024