C.C.C. Stream Improvement Work in Michigan

Peer Reviewedhttps://deepblue.lib.umich.edu/bitstream/2027.42/141739/1/tafs0404.pd

Unlocking the potential of ancient fish DNA in the genomic era.

Fish are the most diverse group of vertebrates, fulfil important ecological functions and are of significant economic interest for aquaculture and wild fisheries. Advances in DNA extraction methods, sequencing technologies and bioinformatic applications have advanced genomic research for nonmodel organisms, allowing the field of fish ancient DNA (aDNA) to move into the genomics era. This move is enabling researchers to investigate a multitude of new questions in evolutionary ecology that could not, until now, be addressed. In many cases, these new fields of research have relevance to evolutionary applications, such as the sustainable management of fisheries resources and the conservation of aquatic animals. Here, we focus on the application of fish aDNA to (a) highlight new research questions, (b) outline methodological advances and current challenges, (c) discuss how our understanding of fish ecology and evolution can benefit from aDNA applications and (d) provide a future perspective on how the field will help answer key questions in conservation and management. We conclude that the power of fish aDNA will be unlocked through the application of continually improving genomic resources and methods to well-chosen taxonomic groups represented by well-dated archaeological samples that can provide temporally and/or spatially extensive data sets

Oreoglanis infulatus , a new species of glyptosternine catfish (Siluriformes: Sisoridae) from central Vietnam

Peer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/72781/1/j.1095-8649.2001.tb00183.x.pd

A phylogenomic perspective on diversity, hybridization and evolutionary affinities in the stickleback genus Pungitius

Hybridization and convergent evolution are phenomena of broad interest in evolutionary biology, but their occurrence poses challenges for reconstructing evolutionary affinities among affected taxa. Sticklebacks in the genus Pungitius are a case in point: evolutionary relationships and taxonomic validity of different species and populations in this circumpolarly distributed species complex remain contentious due to convergent evolution of traits regarded as diagnostic in their taxonomy, and possibly also due to frequent hybridization among taxa. To clarify the evolutionary relationships among different Pungitius species and populations globally, as well as to study the prevalence and extent of introgression among recognized species, genomic data sets of both reference genome-anchored single nucleotide polymorphisms and de novo assembled RAD-tag loci were constructed with RAD-seq data. Both data sets yielded topologically identical and well-supported species trees. Incongruence between nuclear and mitochondrial DNA-based trees was found and suggested possibly frequent hybridization and mitogenome capture during the evolution of Pungitius sticklebacks. Further analyses revealed evidence for frequent nuclear genetic introgression among Pungitius species, although the estimated proportions of autosomal introgression were low. Apart from providing evidence for frequent hybridization, the results challenge earlier mitochondrial and morphology-based hypotheses regarding the number of species and their affinities in this genus: at least seven extant species can be recognized on the basis of genetic data. The results also shed new light on the biogeographical history of the Pungitius-complex, including suggestion of several trans-Arctic invasions of Europe from the Northern Pacific. The well-resolved phylogeny should facilitate the utility of this genus as a model system for future comparative evolutionary studies.Peer reviewe

New data on the systematics and interrelationships of sawfishes (Elasmobranchii, Batoidea, Pristiformes)

New characters based on the arrangement and morphology of dermal denticles show that sawfishes can be divided into two distinctive groups. The first group, comprising the knifetooth sawfish Anoxypristis cuspidata, is characterized by tricuspid denticles variably located on both dorsal and ventral parts of the body. The second group is represented by species of the genus Pristis, showing an uniform and homogenous dermal covering of monocuspidate denticles on both dorsal and ventral sides of the body and within the buccopharyngeal cavity. Pristis is further divided into two subgroups: the first comprises species with denticles lacking any keels and furrows (the smalltooth sawfish Pristis pectinata, the green sawfish Pristis zijsron and the dwarf sawfish Pristis clavata); the second comprises species with denticles presenting keels and furrows well differentiated on their anterior part (the common sawfish Pristis pristis, the largetooth sawfish Pristis perotteti and the greattooth sawfish Pristis microdon). This investigation of the dermal covering provides results which agree with studies that separate the same two species groups of Pristis on the basis of other morphological data

Disentangling the Taxonomy of the Mahseers (Tor spp.) of Malaysia: An Integrated Approach Using Morphology, Genetics and Historical Records

The establishment of appropriate taxonomic designations is essential for the effective management of fishery resources. Despite over a century of explorations and research, the cyprinid genus Tor represents a group of large-bodied freshwater fishes whose taxonomy and systematics remains poorly known. While five species of Tor are currently listed as “endangered” on the IUCN Red List, a further five out of 18 species currently recognized are assessed as “data deficient,” with at least one undescribed species, believed to be on the brink of extinction (i.e., the Humpback Mahseer endemic to the Cauvery River in India). Tor mahseers represent a suitable model for the application of an integrated approach using morphology, genetics, and historical records to resolve species identities, where one or more of these fundamental approaches may have been deficient in the past. Focusing specifically on the taxonomy and nomenclature of the Tor species recorded from Peninsular Malaysia, one of the aims of this review is to define the identity of two nominal species, T. tambra and T. tambroides. Original descriptions of these two nominal species contain little or practically no characters to distinguish them, and partly explains why secondary literature fails to conclusively determine species boundaries. A phylogenetic analysis of mahseer specimens from this region, based on publicly available and newly sequenced mitochondrial COX1 genes, does not support species designation based on previously established morphological features. More importantly, multiple tree-based species delimitation approaches showed that previously sequenced T. tambroides from Peninsular Malaysia and the newly described Tor species from Vietnam could not be delimited from the topotypic Tor tambra. A wider investigation of mahseer taxonomy covering all of Southeast Asia, using such an integrated approach is recommended to resolve the ambiguous taxonomy and is of profound importance for the conservation and management of exploited and farmed populations of these highly valued and iconic fish