The Draft Genome Sequence of a New Land-Hopper Platorchestia hallaensis

Patra, Ajit Kumar; Chung, Oksung; Yoo, Ji Yong; Baek, Sang Ho; Jung, Tae Won; Kim, Min-Seop; Yoon, Moon Geun; Yang, Yali; Choi, Jeong-Hyeon

doi:10.3389/fgene.2020.621301

Cited by 2 publications

(2 citation statements)

References 47 publications

(40 reference statements)

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“…For the world am phipod fauna, seven genome assemblies are mentioned in the literature (Supplementary Material 5). Four of them (H. az teca, Trinorchestia longiramus, Platorchestia hallaensis, and Parhyale hawaensis) belong to the infraorder Talitrida (Kao et al, 2016;Poynton et al, 2018;Patra et al, 2020Patra et al, , 2021. Three species belong to the infraorder Gammarida (Gammarus lacustris, G. roeselii, and E. verrucosus).…”

Section: Perspectives In Whole-genome Studiesmentioning

confidence: 99%

Lake Baikal amphipods and their genomes, great and small

Drozdova,

Madyarova,

Gurkov

et al. 2024

Vestn. VOGiS

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Endemic amphipods (Crustacea: Amphipoda) of Lake Baikal represent an outstanding example of large species flocks occupying a wide range of ecological niches and originating from a handful of ancestor species. Their development took place at a restricted territory and is thus open for comprehensive research. Such examples provide unique opportunities for studying behavioral, anatomic, or physiological adaptations in multiple combinations of environmental conditions and thus attract considerable attention. The existing taxonomies of this group list over 350 species and subspecies, which, according to the molecular phylogenetic studies of marker genes, full transcriptomes and mitochondrial genomes, originated from at least two introductions into the lake. The studies of allozymes and marker genes have revealed a significant cryptic diversity in Baikal amphipods, as well as a large variance in genetic diversity within some morphological species. Crossing experiments conducted so far for two morphological species suggest that the differences in the mitochondrial marker (cytochrome c oxidase subunit I gene) can potentially be applied for making predictions about reproductive isolation. For about onetenth of the Baikal amphipod species, nuclear genome sizes and chromosome numbers are known. While genome sizes vary within one order of magnitude, the karyotypes are relatively stable (2n = 52 for most species studied). Moreover, analysis of the diversity of repeated sequences in nuclear genomes showed significant betweenspecies differences. Studies of mitochondrial genomes revealed some unusual features, such as variation in length and gene order, as well as duplications of tRNA genes, some of which also underwent remolding (change in anticodon specificity due to point mutations). The next important steps should be (i) the assembly of whole genomes for different species of Baikal amphipods, which is at the moment hampered by complicated genome structures with high repeat content, and (ii) updating species taxonomy taking into account all the data.

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Section: Perspectives In Whole-genome Studiesmentioning

confidence: 99%

Lake Baikal amphipods and their genomes, great and small

Drozdova,

Madyarova,

Gurkov

et al. 2024

Vestn. VOGiS

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“…67 Terrestrial adaptation: There is a limited number of terrestrial crustacean species, with the coconut crab (Birgus latro), land-hopper (Platorchestia hallaensis), sand-hopper (Trinorchestia longiramus) and pilllbug Armadillidium being some of the most representative examples. 62,68,79,80 The expansion of genes involved in visual, respiratory, olfactory, and cytoskeletal systems has been identified to play important roles in the terrestrial adaptation of coconut crab. 68 Moreover, the expansion of gene families involved in homeostatic processes and ionic and osmotic stress tolerance has been found to contribute to the terrestrial adaptation of the sand-hopper.…”

Section: Environmental Adaptationmentioning

confidence: 99%

Recent advances in crustacean genomics and their potential application in aquaculture

Yuan

Zhang

et al. 2023

Reviews in Aquaculture

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Genomic resources are increasingly being used to improve the production efficiency and profitability of aquaculture. Crustaceans are a large group of invertebrates that encompasses some of the most important farmed species in the aquaculture industry. However, very few crustacean genomes have been published although an aquaculture genome project was proposed as early as 1997. Breakthroughs in next‐generation and third‐generation sequencing technologies and the development of high‐complexity sequence assembly strategies have promoted the publication of an increasing number of crustacean genomes, thus paving a broad way for biological and genetic studies and applications in aquaculture. In this review, we summarize recent advances in crustacean genomic research as of June 2022, including genome sequencing and assembly, genomic characteristics, and the genetic mechanisms underlying various biological phenotypes, such as environmental adaptation, lifestyle, development, and sex determination. This review also discusses the application of crustacean genomes in aquaculture, including genetic dissection of economic traits and genome‐based selective breeding via genome‐wide association studies and genomic selection. High‐quality genomes are important not only for understanding the genetic basis of biologically and economically important traits but also for the genetic improvement of aquaculture species. However, the utilization of crustacean genomics still lags far behind those in other animals. Therefore, additional multi‐omics studies and technological development are needed to accelerate the application of genomics in aquaculture.

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The Draft Genome Sequence of a New Land-Hopper Platorchestia hallaensis

Cited by 2 publications

References 47 publications

Lake Baikal amphipods and their genomes, great and small

Lake Baikal amphipods and their genomes, great and small

Recent advances in crustacean genomics and their potential application in aquaculture

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