Dataset Open Access
Quantitative trait loci mapping in cichlid fishes: Aulonocara koningsi x Metriaclima mbenjii and Labidochromis caeruleus x Labeotropheus trewavasae
Powder, Kara;
DeLorenzo, Leah;
DeBrock, Victoria;
Mathews, Destiny;
Joglekar, Mansi;
Carmona Baez, Aldo;
Ciccotto, Patrick;
Peterson, Erin;
Moore, Emily;
Stull, Clare;
Roberts, Natalie;
Roberts, Reade;
Michael, Cassia
Since the time of Darwin, biologists have sought to understand the evolution and origins of phenotypic variation. To understand the genetic and molecular sources of morphological differences, we capitalize on the cichlid fish system. Cichlids of the East African Rift Lakes have undergone an extensive adaptive radiation, including variation in body shape, head shape, and pigmentation. These morphological differences are often intimately linked to the ecology and behavior of these animals. Here, we investigate the genetic basis of these phenotypes using quantitative trait loci (QTL) mapping using four genera of Lake Malawi cichlids and two F2 hybrid populations. The first hybrid cross is between Aulonocara koningsi, which lives in the open sandy region and feeds insects from the open sand, and Metriaclima mbenjii, an omnivore rock-dwelling fish. The second cross is between Labidochromis caeruleus, a suction-feeding insectivore that swims continuously searching for prey, and Labeotropheus trewavasae, which feeds by biting or scraping attached algae from the rocks in its benthic habitat. Such work can provide insights into the molecular basis of phenotypic adaptation, the genetic architecture of morphology, and the evolution of cichlid fishes.
.CSV files can be opened in Microsoft Excel, OpenOffice, or a data analysis environment such as R (https://www.r-project.org/). .TPS files can be opened and analyzed using software available at https://sbmorphometrics.org/, specifically TPSutil, TpsDig, and TPSrelw for file management (e.g. sample removal), landmark digitization, and geometric morphometric analysis, respectively. .TPS files can be converted in TPSutil to be analyzed in R. Genotype files are formatted for upload and analysis in R/qtl. File names with "MmAk" indicates the Metriaclima x Aulonocara cross, while "LcLt" refers to Labidochromis x Labeotropheus.
Funding provided by: National Science Foundation
Crossref Funder Registry ID: http://dx.doi.org/10.13039/100000001
Award Number: IOS-1942178
Funding provided by: National Institute of General Medical Sciences
Crossref Funder Registry ID: http://dx.doi.org/10.13039/100000057
Award Number: P20GM121342
Funding provided by: National Institute of Dental and Craniofacial Research
Crossref Funder Registry ID: http://dx.doi.org/10.13039/100000072
Award Number: R15DE029945
Funding provided by: National Science Foundation
Crossref Funder Registry ID: http://dx.doi.org/10.13039/100000001
Award Number: IOS-1456765
Funding provided by: Arnold and Mabel Beckman Foundation
Crossref Funder Registry ID: http://dx.doi.org/10.13039/100000997
Award Number: Young Investigator Award
| Name | Size | |
|---|---|---|
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LcLt_BodyPhenotype_Master.csv
md5:c92378e661884be7044272fa976ee0aa |
123.4 kB | Download |
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LcLt_BodyQTL_genotypes.csv
md5:975cc60a9d8cab7acaff6cebfa56372c |
1.7 MB | Download |
|
LcLt_Head_lateral_landmarks.TPS
md5:e4195eecd24a5b802673d68d740e43db |
152.8 kB | Download |
|
LcLt_Head_ventral_landmarks.TPS
md5:d817c536164c0c73853c2ab8a86aa405 |
133.6 kB | Download |
|
LcLt_HeadPhenotype_Master.csv
md5:64b89532ada585d4e4a76d5543df1aa1 |
230.2 kB | Download |
|
LcLt_HeadQTL_genotypes.csv
md5:257df4db90931dc036b4ea4e93d14fcb |
1.7 MB | Download |
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LcLt_MmAk_body_landmarks.TPS
md5:0ee05fb01eaa37427e58a7318c9a3c18 |
306.9 kB | Download |
|
MmAk_BodyPhenotype_Master.csv
md5:35d369ef11a8928ad5c78654f27fe72d |
130.4 kB | Download |
|
MmAk_BodyQTL_genotypes.csv
md5:bc0a0777e4afb432bd7a5fea1c0243a5 |
2.0 MB | Download |
|
MmAk_Pigment_genotypes.csv
md5:a73698862a89a60800f515c454754f9d |
2.0 MB | Download |
|
MmAk_PigmentPhenotype_Master.csv
md5:df33afdd2fc58716bf95677b6282e3da |
105.6 kB | Download |
|
README.txt
md5:1042e8db349eebc9b06dd5f679982d0b |
1.6 kB | Download |
| Views | 22 |
| Downloads | 24 |
| Data volume | 4.5 MB |
| Unique views | 20 |
| Unique downloads | 21 |
Indexed in
- Publication date:
- July 31, 2023
- DOI:
-
- Keyword(s):
- cichlid Craniofacial evolution quantitative trait loci mapping geometric morphometric analysis body shape adaptation
- Related identifiers:
- Cited by
- Communities:
- License (for files):
- Creative Commons Zero v1.0 Universal