Nebnext rrna depletion v2 human mouse rat

Manufactured by New England Biolabs

The NEBNext rRNA depletion v2 (Human/Mouse/Rat) is a kit designed to remove ribosomal RNA (rRNA) from total RNA samples prior to library preparation for RNA sequencing. The kit targets human, mouse, and rat rRNA species, allowing for efficient depletion across these common research organisms.

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Lab products found in correlation

Tapestation 2200, by Agilent Technologies (3 mentions) Ultra 2 directional rna 10 ng, by New England Biolabs (3 mentions) Dnase 1, by Zymo Research (3 mentions) Qubit fluorometer, by Thermo Fisher Scientific (3 mentions) Unique dual index primer pairs, by New England Biolabs (2 mentions) Dnase, by New England Biolabs (1 mentions)

Close spelling variants of this product

NEBNext rRNA Depletion Kit v2 (Human/Mouse/Rat; (6 citations)

3 protocols using nebnext rrna depletion v2 human mouse rat

RNA Isolation and Directional Library Prep

Cited 1 time

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RNA isolation and library preparation is fully described in Butler, et al. (Butler et al., 2021 (link)). Briefly, library preparation on all the nasopharyngeal swab samples’ total nucleic acid (TNA) were treated with DNAse 1 (Zymo Research, Catalog # E1010). Post-DNAse digested samples were then put into the NEBNext rRNA depletion v2 (Human/Mouse/Rat), Ultra II Directional RNA (10 ng), and Unique Dual Index Primer Pairs were used following the vendor protocols from New England Biolabs. Kits were supplied from a single manufacturer lot. Completed libraries were quantified by Qubit or equivalent and run on a Bioanalyzer or equivalent for size determination. Libraries were pooled and sent to the WCM Genomics Core or HudsonAlpha for final quantification by Qubit fluorometer (ThermoFisher Scientific), TapeStation 2,200 (Agilent), and qRT-PCR using the Kapa Biosystems Illumina library quantification kit.

Saravia-Butler A.M., Schisler J.C., Taylor D., Beheshti A., Butler D., Meydan C., Foox J., Hernandez K., Mozsary C., Mason C.E, & Meller R. (2022). Host transcriptional responses in nasal swabs identify potential SARS-CoV-2 infection in PCR negative patients. iScience, 25(11), 105310.

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RNA Isolation and Library Preparation

Cited 1 time

Check if the same lab product or an alternative is used in the 5 most similar protocols

RNA isolation and library preparation is fully described in Butler et al. (2021) (link). Briefly, library preparation on the all nasopharyngeal swab samples’ total nucleic acid (TNA) were treated with DNase 1 (Zymo Research, Catalog # E1010). Post-DNase digested samples were then put into the NEBNext rRNA depletion v2 (Human/Mouse/Rat), Ultra II Directional RNA (10 ng), and Unique Dual Index Primer Pairs were used following the vendor protocols from New England Biolabs. Kits were supplied from a single manufacturer lot. Completed libraries were quantified by Qubit or equivalent and run on a Bioanalyzer or equivalent for size determination. Libraries were pooled and sent to the WCM Genomics Core or HudsonAlpha for final quantification by Qubit fluorometer (ThermoFisher Scientific), TapeStation 2200 (Agilent), and qRT-PCR using the Kapa Biosystems Illumina library quantification kit.

McDonald J.T., Enguita F.J., Taylor D., Griffin R.J., Priebe W., Emmett M.R., Sajadi M.M., Harris A.D., Clement J., Dybas J.M., Aykin-Burns N., Guarnieri J.W., Singh L.N., Grabham P., Baylin S.B., Yousey A., Pearson A.N., Corry P.M., Saravia-Butler A., Aunins T.R., Sharma S., Nagpal P., Meydan C., Foox J., Mozsary C., Cerqueira B., Zaksas V., Singh U., Wurtele E.S., Costes S.V., Davanzo G.G., Galeano D., Paccanaro A., Meinig S.L., Hagan R.S., Bowman N.M., Wolfgang M.C., Altinok S., Sapoval N., Treangen T.J., Moraes-Vieira P.M., Vanderburg C., Wallace D.C., Schisler J.C., Mason C.E., Chatterjee A., Meller R, & Beheshti A. (2021). Role of miR-2392 in driving SARS-CoV-2 infection. Cell Reports, 37(3), 109839.

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Efficient RNA-Seq Library Preparation

Check if the same lab product or an alternative is used in the 5 most similar protocols

For library preparation, all samples’ total nucleic acid (TNA) were treated with DNAse 1(Zymo Research, Catalog # E1010), which cuts both double-stranded and single-stranded DNA. Post-DNAse digested samples were then put into the NEBNext rRNA depletion v2 (Human/Mouse/Rat), Ultra II Directional RNA (10 ng), and Unique Dual Index Primer Pairs were used following the vendor protocols from New England Biolabs (except for the first flowcell, see Supplementary Figures). Kits were supplied from a single manufacturer lot. Completed libraries were quantified by Qubit or equivalent and run on a Bioanalyzer or equivalent for size determination. Libraries were pooled and sent to the WCM Genomics Core or HudsonAlpha for final quantification by Qubit fluorometer (ThermoFisher Scientific), TapeStation 2200 (Agilent), and qRT-PCR using the Kapa Biosystems Illumina library quantification kit.

Butler D., Mozsary C., Meydan C., Foox J., Rosiene J., Shaiber A., Danko D., Afshinnekoo E., MacKay M., Sedlazeck F.J., Ivanov N.A., Sierra M., Pohle D., Zietz M., Gisladottir U., Ramlall V., Sholle E.T., Schenck E.J., Westover C.D., Hassan C., Ryon K., Young B., Bhattacharya C., Ng D.L., Granados A.C., Santos Y.A., Servellita V., Federman S., Ruggiero P., Fungtammasan A., Chin C.S., Pearson N.M., Langhorst B.W., Tanner N.A., Kim Y., Reeves J.W., Hether T.D., Warren S.E., Bailey M., Gawrys J., Meleshko D., Xu D., Couto-Rodriguez M., Nagy-Szakal D., Barrows J., Wells H., O’Hara N.B., Rosenfeld J.A., Chen Y., Steel P.A., Shemesh A.J., Xiang J., Thierry-Mieg J., Thierry-Mieg D., Iftner A., Bezdan D., Sanchez E., Campion TR J.r., Sipley J., Cong L., Craney A., Velu P., Melnick A.M., Shapira S., Hajirasouliha I., Borczuk A., Iftner T., Salvatore M., Loda M., Westblade L.F., Cushing M., Wu S., Levy S., Chiu C., Schwartz R.E., Tatonetti N., Rennert H., Imielinski M, & Mason C.E. (2021). Shotgun transcriptome, spatial omics, and isothermal profiling of SARS-CoV-2 infection reveals unique host responses, viral diversification, and drug interactions. Nature Communications, 12, 1660.

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