Hello,
I'd like to estimate the amount of diversity in an insect population so that we can determine the number of individuals to include in a future re-sequencing study. I am only looking for an estimate so we can design the future experiment with enough samples to accurately assess genetic diversity at several locations.
I have a genome and RNAseq data from 35 individuals from one location as part of another project. I'd like to use the RNAseq data to estimate diversity.
This paper assembles a transcriptome from each sampled individual, maps to a reference transcriptome made from pooling the individuals, and then calls SNPs-
https://onlinelibrary.wiley.com/doi/...111/jipb.12287
Presumably I could map the reads from each of my 35 bugs to my reference genome and do SNP calling. Does this sound legit? Do you have any advice on how I would arrive at an estimate for the number of individuals needed from each location based on the variation in this population?
Seqanswers Leaderboard Ad
Collapse
Announcement
Collapse
No announcement yet.
X
Latest Articles
Collapse
-
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...-
Channel: Articles
04-04-2024, 04:25 PM -
-
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...-
Channel: Articles
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
25 views
0 likes
|
Last Post
by seqadmin
04-11-2024, 12:08 PM
|
||
Started by seqadmin, 04-10-2024, 10:19 PM
|
0 responses
27 views
0 likes
|
Last Post
by seqadmin
04-10-2024, 10:19 PM
|
||
Started by seqadmin, 04-10-2024, 09:21 AM
|
0 responses
24 views
0 likes
|
Last Post
by seqadmin
04-10-2024, 09:21 AM
|
||
Started by seqadmin, 04-04-2024, 09:00 AM
|
0 responses
52 views
0 likes
|
Last Post
by seqadmin
04-04-2024, 09:00 AM
|