Seqanswers Leaderboard Ad

Collapse

Announcement

Collapse
No announcement yet.
X
 
  • Filter
  • Time
  • Show
Clear All
new posts

  • Superscript IV bacterial contamination?

    Dear all,
    we have recently performed single-cell RNA-seq using a variety of methods and enzymes (Smart-seq2, Smart-seq3, Takara, etc). We observed that when using Superscript IV the number of reads "too short" to be aligned is sometimes 20-30% or higher...but we are using an oligodT to RT the mRNA. These too short reads turned out to align to bacterial rRNA (E.coli).
    Many of the reagents are in common between protocols, so a contamination of other reagents is probably not the case here.

    I remember that a few years ago there was a thread on this forum discussing the same issue for Superscript II and the conclusion was that some lots were contaminated (even if the company never admitted that). Did anybody have similar experiences lately?

    Unfortunately we don´t have the lot number for many of the tubes we used but we are pretty sure that lot 00829693 (expiry date 2023/07/31) might be one of them.
    Thanks for your help!
    Simone

Latest Articles

Collapse

  • seqadmin
    Strategies for Sequencing Challenging Samples
    by seqadmin


    Despite advancements in sequencing platforms and related sample preparation technologies, certain sample types continue to present significant challenges that can compromise sequencing results. Pedro Echave, Senior Manager of the Global Business Segment at Revvity, explained that the success of a sequencing experiment ultimately depends on the amount and integrity of the nucleic acid template (RNA or DNA) obtained from a sample. “The better the quality of the nucleic acid isolated...
    03-22-2024, 06:39 AM
  • seqadmin
    Techniques and Challenges in Conservation Genomics
    by seqadmin



    The field of conservation genomics centers on applying genomics technologies in support of conservation efforts and the preservation of biodiversity. This article features interviews with two researchers who showcase their innovative work and highlight the current state and future of conservation genomics.

    Avian Conservation
    Matthew DeSaix, a recent doctoral graduate from Kristen Ruegg’s lab at The University of Colorado, shared that most of his research...
    03-08-2024, 10:41 AM

ad_right_rmr

Collapse

News

Collapse

Topics Statistics Last Post
Started by seqadmin, Yesterday, 06:37 PM
0 responses
10 views
0 likes
Last Post seqadmin  
Started by seqadmin, Yesterday, 06:07 PM
0 responses
9 views
0 likes
Last Post seqadmin  
Started by seqadmin, 03-22-2024, 10:03 AM
0 responses
49 views
0 likes
Last Post seqadmin  
Started by seqadmin, 03-21-2024, 07:32 AM
0 responses
67 views
0 likes
Last Post seqadmin  
Working...
X