Seqanswers Leaderboard Ad

Collapse

Announcement

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

  • ECO
    replied
    I have seen a couple methods out there for differential lysis of human vs bacterial cells (one was from a company called ZyGEM but i couldn't find it just now, it was a couple years ago).

    My experience is that with the Oragene kit's fairly strong lysis/preservation buffer you'll get a ton of bacterial DNA as well. As cliffbeall said, you may not get perfect representation of the bacteria due to differental resistance to lysis.

    Buccal swabs are cleaner, as you're scraping human tissue intentionally, but you won't get as much yield/sample.

    Leave a comment:


  • cliffbeall
    replied
    This made me chuckle because our group is interested in the bacterial sequences from saliva. You wouldn't want to send us the bacterial sequences you're not going to use, would you?

    Seriously, the only thing I can think of is to do the lysis step without a lot of agitation. A lot of bacteria are fairly tough. We use Qiagen and add bead-beating to completely recover the bacterial DNA.

    Leave a comment:


  • ulz_peter
    started a topic Bacterial contamination in salival sample

    Bacterial contamination in salival sample

    Hi Guys,

    Now to something completely different... We would like to sequence DNA obtained from saliva. Now the thing is saliva contains a lot of bacteria (according to Wikipedia: 500 million cells / ml). When we isolate DNA their DNA should still be there, right? So, if we'd make a shotgun library we would lose quite a lot of reads to bacterial DNA being sequenced.

    Is there a way to get rid of that or is that already done during DNA isolation (we're using Oragene Kit)?

    Any help is highly appreciated,

    Peter

Latest Articles

Collapse

  • seqadmin
    Current Approaches to Protein Sequencing
    by seqadmin


    Proteins are often described as the workhorses of the cell, and identifying their sequences is key to understanding their role in biological processes and disease. Currently, the most common technique used to determine protein sequences is mass spectrometry. While still a valuable tool, mass spectrometry faces several limitations and requires a highly experienced scientist familiar with the equipment to operate it. Additionally, other proteomic methods, like affinity assays, are constrained...
    04-04-2024, 04:25 PM
  • 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

ad_right_rmr

Collapse

News

Collapse

Topics Statistics Last Post
Started by seqadmin, 04-11-2024, 12:08 PM
0 responses
30 views
0 likes
Last Post seqadmin  
Started by seqadmin, 04-10-2024, 10:19 PM
0 responses
32 views
0 likes
Last Post seqadmin  
Started by seqadmin, 04-10-2024, 09:21 AM
0 responses
28 views
0 likes
Last Post seqadmin  
Started by seqadmin, 04-04-2024, 09:00 AM
0 responses
53 views
0 likes
Last Post seqadmin  
Working...
X