assessment of salmon stocks in scotland: integrating genetics - mark coulson, rivers & lochs...
TRANSCRIPT
Assessment of Salmon Stocks in Scotland: Integrating Genetics
(AS3IG)
Mark Coulson Rivers and Lochs Institute
UHI Inverness College
Rivers and Lochs Institute
StudentsMatt Curran Part-time PhD Evan Roderick M by ResDara Vaughn Full-time PhD
Supporting the sustainable management of Scotland’s
freshwater biodiversity
Biodiversity Management Applied GenomicsBioMAG Laboratory
Current Demographic Assessment Metrics
Retain
Main river counters
Angling records+
Mark-recapture
Catch Release
Tributary counters
Redd Counts
Juvenile surveys
Smolt Counters
Number, size, timing, age
Number, size, timing, age
Number, size, timing, age
Logistic and Analytical Challenges in using this information to achieve
conservation/exploitation objectives
Retain
Main river counters
Angling records+
Mark-recapture
Catch
Release
Tributary counters
Redd Counts
Juvenile surveys
Smolt Counters
Number, size, timing, age
Number, size, timing, age
Number, size, timing, age
Numbers of breedersgenetic diversitypopulation membership phenotype (e.g. run timing)
Current Demographic Assessment Metrics + Genetics
Optimisation of
genotyping and data
processing
UHI-SME Collaboration
Fisheries Management
Delivery of stock assessment framework
Delivery of genetic analysis service
AS3IG Project(Assessment of Salmon Stocks in Scotland: Integrating Genetics)
FundingSSE
UHI/ICNess DSFB
Spey Foundation
Dara Evan
River Carron 2012 juvenile sample
Identified 10 groups as most likely
Individuals sorted by group membership
stocked? wild? stocked/wild? wild? stocked?
Group % related Nb # full-sib families
1 100 7 (1 + 6) 62 100 6 (1 + 5) 53 3 92 (45 + 47) 694 6 57 (27 + 30) 425 47 5 (2 + 3) 36 14 18 (8 + 10) 107 3 95 (45 + 40) 688 18 14 (6 + 8) 139 77 10 (7 + 3) 8
10 100 4 (1 + 3) 3
stocked? wild? stocked/wild? wild? stocked?
River Carron - estimating number of breeders
Sample of juveniles
4
4
Resolving family relationships
Sample of juveniles(n = 10)
4
4
Resolving family relationships
No. breeders = 8
Max. No. breeders = 20
Nb/Max. Nb = 8/20 = 0.4
BUT
Site Sample size No. Breeders Max. Breed Ratio
Whiteadder 50 68 100 0.68
Till - Twizel Mill 32 44 64 0.69
Till - Lilburn 50 65 100 0.65
Teviot Ale Water 31 51 62 0.82
Middle Tweed Gledswood 50 77 100 0.77
Ettrick lowest 51 74 102 0.73
Ettrick - middle 50 64 100 0.64
Ettrick – middle 32 45 64 0.70
Ettrick Rankle Burn 65 77 130 0.59
Ettrick- upper 46 51 92 0.55
Yarrow lower 48 61 96 0.64
Yarrow Douglas Burn 32 50 64 0.78
Yarrow upper 50 59 100 0.59
Upper Tweed Elibank 32 54 64 0.84
Manor Water3 43 59 86 0.69
Upper Tweed – Drumelzier 50 69 100 0.69
Upper Tweed – Fruid 32 45 64 0.70
River Tweed (FASMOP report)
• Barriers?• Fry/parr electrofishing surveys• Stream order/elevation/distance upstream. . .
Courtesy: James Hunt
Nb/Nratio
UnequalSex ratio
Variance in Reproductive
success
FluctuatingPopulation size-
- -Photo from: Moore & Fraser (2013)
Annual total adult run size (N)Annual number large (>63 cm) adultsNb estimate (lower 95% CL)
+precocious parr
Genetic Assessment Sampling Challenges
Sampling requirements for specific of river stock conditioned by e.g.• population structuring• number of populations • spatial distribution of populations• need for population specific or overall river
stock information• costs of genetic typing of individual loci• confidence limits needed around Nb
Sampling requirements for genome conditioned by e.g.• variability of loci i.e. number of alleles• linkage relationships among loci i.e.
unlinked is best • confidence limits needed around Nb
• costs of genetic typing of individual loci
10 km
Sampling requirements for short simple systems (e.g. Evelix) will be different than for long branching systems (e.g. Oykel-Casseley) and in turn than for long systems with lochs (e.g. Shin system)
Optimisation of
genotyping and data
processing
UHI-SME Collaboration
Fisheries Management
Delivery of stock assessment framework
Delivery of genetic analysis service
AS3IG Project(Assessment of Salmon Stocks in Scotland: Integrating Genetics)
case
stud
ies
Retain
Main river counters
Angling records+
Mark-recapture
Catch
Release
Tributary counters
Redd Counts
Juvenile surveys
Smolt Counters
Number, size, timing, age
Number, size, timing, age
Number, size, timing, age
Numbers of breedersgenetic diversitypopulation membership phenotype (e.g. run timing)
Current Demographic Assessment Metrics + Genetics