Exploring the Expression of Cardiac Regulators in a Vertebrate Extremophile: The Cichlid Fish Oreochromis (Alcolapia) alcalica

Although it is widely accepted that the cellular and molecular mechanisms of vertebratecardiac development are evolutionarily conserved, this is on the basis of data from only a fewmodel organisms suited to laboratory studies. Here, we investigate gene expression during cardiacdevelopment in the extremophile, non-model fish species, Oreochromis (Alcolapia) alcalica. Wefirst characterise the early development of O. alcalica and observe extensive vascularisation across the yolk prior to hatching. We further investigate heart development by identifying andcloning O. alcalica orthologues of conserved cardiac transcription factors gata4, tbx5, and mef2cfor analysis by in situ hybridisation. Expression of these three key cardiac developmentalregulators also reveals other aspects of O. alcalica development, as these genes are expressed indeveloping blood, limb, eyes, and muscle, as well as the heart. Our data support the notion that O.alcalica is a direct-developing vertebrate that shares the highly conserved molecular regulation ofthe vertebrate body plan. However, the expression of gata4 in O. alcalica reveals interestingdifferences in the development of the circulatory system distinct from that of the well-studiedzebrafish. Understanding the development of O. alcalica embryos is an important step towardsproviding a model for future research into the adaptation to extreme conditions; this is particularlyrelevant given that anthropogenic-driven climate change will likely result in more freshwaterorganisms being exposed to less favourable conditions

Losing cichlid fish biodiversity: genetic and morphological homogenization of tilapia following colonization by introduced species

Among the many negative impacts of invasive species, hybridization with indigenous species has increasingly become recognized as a major issue. However, relatively few studies have characterized the phenotypic outcomes of hybridization following biological invasions. Here we investigate the genetic and morphological consequences of stocking invasive tilapia species in two water bodies in central Tanzania. We sampled individuals from the Mindu Reservoir on the Ruvu river system, and at Kidatu on the Great Ruaha–Rufiji river system. We screened individuals at 16 microsatellite loci, and quantified morphology using geometric morphometrics and linear measurements. In both the Mindu and Kidatu systems, we identified evidence of hybridization between indigenous Wami tilapia (Oreochromis urolepis) and the introduced Nile tilapia (Oreochromis niloticus) or blue-spotted tilapia (Oreochromis leucostictus). At both sites, purebred individuals could largely be separated using geometric morphometric variables, with hybrids occupying a broad morphospace among the parental species. Our data demonstrate that the gene pools and phenotypic identity of the indigenous O. urolepis have been severely impacted by the stocking of the invasive species. Given the lack of evidence for clear commercial benefits from stocking invasive tilapia species in waters already populated by indigenous congenerics, we suggest further spread of introduced species should be undertaken with considerable caution

Morphometric data

Linear measurements. Included are species assignments based on the genetic data (Structure output)

Data from: Losing cichlid fish biodiversity: genetic and morphological homogenization of tilapia following colonization by introduced species

Among the many negative impacts of invasive species, hybridization with indigenous species has increasingly become recognized as a major issue. However, few studies have characterized the phenotypic outcomes of hybridization following biological invasions. Here we investigate the genetic and morphological consequences of stocking invasive tilapia species in two water bodies in central Tanzania. We sampled individuals from Mindu Reservoir on the Ruvu river system, and at Kidatu on the Great Ruaha-Rufiji river system. We screened individuals at 16 microsatellite loci, and quantified morphology using geometric morphometrics and linear measurements. In both the Mindu and Kidatu systems, we identified evidence of hybridization between indigenous Wami tilapia (Oreochromis urolepis) and the introduced Nile tilapia (Oreochromis niloticus) or blue-spotted tilapia (Oreochromis leucostictus). At both sites, purebred individuals could largely be separated using geometric morphometric variables, with hybrids occupying a broad morphospace among the parental species. Our data demonstrate that the gene pools and phenotypic identity of the indigenous O. urolepis have been severely impacted by the stocking of the invasive species. Given the lack of evidence for clear commercial benefits from stocking invasive tilapia species in waters already populated by indigenous congenerics, we suggest further spread of introduced species should be undertaken with considerable caution

Shechonge_GeometricMorphometricData

Landmark coordinates, tps fil

Whole genome resequencing data enables a targeted SNP panel for conservation and aquaculture of Oreochromis cichlid fishes

Cichlid fish of the genus Oreochromis form the basis of the global tilapia aquaculture and fisheries industries. Broodstocks for aquaculture are often collected from wild populations, which in Africa may be from locations containing multiple Oreochromis species. However, many species are difficult to distinguish morphologically, hampering efforts to maintain good quality farmed strains. Additionally, non-native farmed tilapia populations are known to be widely distributed across Africa and to hybridize with native Oreochromis species, which themselves are important for capture fisheries. The morphological identification of these hybrids is particularly unreliable. Here, we describe the development of a single nucleotide polymorphism (SNP) genotyping panel from whole-genome resequencing data that enables targeted species identification in Tanzania. We demonstrate that an optimized panel of 96 genome-wide SNPs based on FST outliers performs comparably to whole genome resequencing in distinguishing species and identifying hybrids. We also show this panel outperforms microsatellite-based and phenotype-based classification methods. Case studies indicate several locations where introduced aquaculture species have become established in the wild, threatening native Oreochromis species. The novel SNP markers identified here represent an important resource for assessing broodstock purity in hatcheries and helping to conserve unique endemic biodiversity.,Set of 118 SNPs for the tested Oreochromis niloticus, urolepis, leucostictus and hybrids, as well as the reduced 96 SNP set.,Datafiles: all118.ped and .map are the full SNP panel dataset for all 168 individuals top96.ped and .map are the most informative 96 SNPs (subset of the 118 SNPs) (according to PC loading scores) for all 168 individuals. all118.ped - PLINK format ped file for all 118 SNP panel SNPs all118.map - PLINK format map file for all118.ped top96.ped - PLINK format ped file for all 118 SNP panel SNPs top96.map - PLINK format map file for all118.ped Citation: Whole genome resequencing data enables a targeted SNP panel for conservation and aquaculture of Oreochromis cichlid fishes. 2022. Aquaculture. 548 part 2. Contact: [email protected]