Digital Commons Network^™

Slides: Rapanos And The Courts: Navigating Through The Fog, Jim Murphy

Western Water Law, Policy and Management: Ripples, Currents, and New Channels for Inquiry (Martz Summer Conference, June 3-5)

Presenter: Jim Murphy, Wetlands and Water Resources Counsel, National Wildlife Federation, VT

25 slides

A New Brevicipitid Species (Brevicipitidae: Callulina) From The Fragmented Forests Of The Taita Hills, Kenya, Simon P. Loader, G. John Measey, Rafael O. De Sá, Patrick K. Malonza

Biology Faculty Publications

A new species Callulina dawida is described from the Taita Hills, Kenya. It is distinguished from other members of the genus on the basis of the degree of digital expansion. The species further differs from other members of the genus based on molecular sequence comparisons and on its call. The morphological variation in the new species is described, including a comparison of internal and external characters and sexual dimorphism with other species of Callulina. The conservation status of the species, on the basis of its restricted distribution and land use changes in the area, is considered to be of …

Fisheries Research Report No. 193 - Investigating Reproductive Biology Issues Relevant To Managing The Western Rock Lobster Broodstock, Roy Melville-Smith, Simon De Lestang, N Beale, D Groth, A Thompson

Fisheries Research Reports

Final FRDC Report – Project 2003/005

Objectives:

1. To investigate the implications of the setose and maximum size rules.

2. To undertake preliminary investigations into the implications of egg diameters being significantly smaller at the Abrolhos Islands than at the coast.

3. To quantify the extent of the breeding grounds, so as to weight the overall egg production index for the stock by the contribution of the management zones.

Increases in efficiency due to modern electronic equipment, improved fishing vessels and knowledge about the grounds and lobster behaviour, have all led to western rock lobster fishers becoming more efficient at …

Finfish Aquaculture In Western Australia. Final Esd Management Report For Marine Finfish Aquaculture., Department Of Fisheries Western Australia.

Fisheries Management Papers

It has been recognized that there are a number of potential impediments to achieving continued growth of this industry. These include the need for increased investment, an expansion in markets and ensuring environmental sustainability. One of the most important however, is meeting the growing expectations of the community that all aquaculture sectors can clearly demonstrate that they are operating within the principles of Ecologically Sustainable Development (ESD). Western Australia’s Department of Fisheries is responsible for the management of aquaculture in the State and is committed to implementing ESD. These principles are contained within the objectives of the Fish Resources Management …

Fisheries Research Report No.157 - The Western Rock Lobster Fishery 2003/2004 And 2004/2005, Simon De Lestang, E H. Barker

Fisheries Research Reports

The 2003/2004 season produced the second highest catch recorded to date (13,684 tonnes), up markedly on the previous season’s catch of 11,415 t. Nominal effort in 2003/2004 (10,180,444 pot lifts) did not vary by nearly as much as did the catch, with total pot lifts declining only slightly (<1%) on the previous season. Season 2004/2005 produced a catch of 12, 236 tonnes, down on the previous season’s catch of 13,684 t. Similar to the catch, total nominal effort in 2004/2005 (9,789,671 pot lifts) also declined fairly substantially (4%) on the previous season. Recreational catches for the above two seasons were also down on their respective previous seasons by 52 and 11% each.

Puerulus settlement coast wide during 2003/2004 was below average, especially towards the southern and northern extremes of the fishery (Port Gregory and Jurien Bay south). This was also the case during the following season (2004/2005), although the poor settlement was more evenly spread across the entire fishery. Catch predictions from these …

Fisheries Research Report No. 174 - Spatial Scales Of Exploitation Among Populatons Of Demersal Scalefish : Implications For Management. Part 2: Stock Structure And Biology Of Two Indicator Species, West Australian Dhufish (Glaucosoma Hebraicum) And Pink Snapper (Pagrus Auratus) In The West Coast Bioregion, Department Of Fisheries, Western Australia

Fisheries Research Reports

Final FRDC Report - Project 2003/052

EDITORS: R. Lenanton, J. StJohn, I. Keay, C. Wakefield, G. Jackson, B. Wise and D. Gaughan

West Australian dhufish is endemic to shelf waters of south-western Western Australia (WA). In contrast, snapper (known as “pink snapper” in WA) has a continuous distribution around the southern coastline of mainland Australia and in New Zealand. Dhufish and snapper are the two most important exploited demersal scalefish species in the West Coast Bioregion (WCB) of WA, which extends from Kalbarri (27°S) to Augusta (35°S). This study examined regional variation in the biology of the two species, their …

Fisheries Occasional Publication No. 65 - A Review Of Management Arrangements For The Recreational Fishery For Demersal Scalefish In The West Coast Bioregion, Peter Neville, Department Of Fisheries, Western Australia

Fisheries Occasional Publications

In December 2008, the Hon. Norman Moore, MLC, Minister for Fisheries, Western Australia appointed two independent experts to review a number of aspects relating to the west coast demersal scalefish recreational fishery; namely to assess separately:

1. the validity of the scientific advice on which management decisions have been made; and
2. options to manage recreational fishing of west coast demersal scalefish.

On-Line Studies On Nebraska Ornithology, Paul A. Johnsgard

Nebraska Bird Review

In recent years the University of Nebraska has been developing a DigitalCommons Internet library (http://digitalcommons.unl.edu/) that is freely available online, and that includes publications in the humanities and sciences. The DigitalCommons is a national online digital library that serves as a repository for scholarly publishing. It is a collection of a university's scholarly effort that preserves and makes accessible information via the Internet that is produced by that institution. It may include preliminary or final copies of journal articles, theses, dissertations, conference proceedings, books, or other scholarly materials. The University of Nebraska has been an active participant in this national …

Fisheries Occasional Publication No. 68 - A Quota Management System For The Western Rock Lobster Fishery, Rock Lobster Industry Advisory Committee (Rliac), Department Of Fisheries, Western Australia

Fisheries Occasional Publications

There has been much debate over the past two decades on the most appropriate long-term management framework for Western Australia’s Western Rock Lobster Fishery. More recently a debate over whether the fishery would be best managed under a Quota Management System (QMS) or the continuation of the current Input Control Management System (ICMS) culminated in an industry vote coordinated by the Western Rock Lobster Council (WRLC) in 2006 . The outcome of this vote resulted in industry support to retain the existing management system based on input controls2 , however, shortly after the vote there was a renewed level of …

Fisheries Occasional Publication No. 69 - An Input Control Management System For The Western Rock Lobster Fishery, Rock Lobster Industry Advisory Committee (Rliac), Department Of Fisheries Western Australia

Fisheries Occasional Publications

The Rock Lobster Industry Advisory Committee (RLIAC), the Hon. Minister for Fisheries and the Department of Fisheries, Western Australia have commenced a process of assessing the options for future management of the Western Rock Lobster Fishery. As part of this assessment, an expert Panel has previously prepared an analysis of an optimal quota management system (QMS) suitable for the fishery. As the next step in the assessment of management options, RLIAC requested that an expert panel also advise them on the design characteristics of an improved input control management system (ICMS) for the fishery and to provide advice on the …

Fish Assemblages In Manistee River Tributaries: Longitudinal Distribution Analysis, Seasonal Variation, And Riparian Improvement Evaluation, Nicholas J. Gressick

Masters Theses

Sedimentation affects both stream physical and biological integrity. Improperly designed stream passage accompanied with sedimentation and altered hydrology can impede fish passage and reduce fish assemblage integrity. The purpose of this study was to: 1) quantify impacts of poorly constructed road stream crossings and eroding banks on fish assemblages, and 2) assess these sites as sediment sources and connectivity breaks on entire fish assemblages and individual fish species. Electrofishing was conducted during spring and fall 2004 and 2005. A total of 29 electrofishing reaches were sampled which included 5 road-stream and streambank restoration sites. Sickle Creek (1st order) had reduced …

The Taming Of The Cat, Carlos A. Driscoll, Juliet Clutton-Brock, Andrew C. Kitchener, Stephen J. O'Brien

Biology Faculty Articles

This article discusses research into the evolution of domesticated cats, which is complicated by the fact that they do not appear to serve humans. Although several species are morphologically similar, genetic research focusing on mitochondrial DNA and genetic microsatellites found that domesticated cats descended from F. sylvestris lybica. Archaeological research indicating cats came to live with humans as the prevalence of house mice in agricultural settlements increased is noted. Insets: The House Cat's Ancestor; Early Domestication; From Wild to Mild; The Truth about Cats and Dogs

Viability Of Alternative Genetic Improvement Strategies Using Whole Genome Selection On Commercial Dairy Operations, Levi W.M. Gassaway

Master's Theses

The objective of this thesis was to determine the viability of alternative genetic improvement strategies (GIS). Each alternative GIS combined the use of whole genome selection (WGS) with common reproductive methods (non-sexed semen artificial insemination (AI), sexed semen AI, embryo transfer utilizing non-sexed semen AI) that can be found on a commercial dairy operation. The viability of each GIS was determined using a discounted gene flow model, designed with parameters of a typical western dairy operation, to evaluate the following variables: reproductive method, selection intensity, accuracy of prediction and female age-class. Of the GIS investigated, a heifer-based strategy that used …

Temporal Shifts In Demography And Life History Of An Anadromous Alewife Population In Connecticut, Justin P. Davis, Eric T. Schultz

EEB Articles

Populations of anadromous alewives (Alosa pseudoharengus) are declining throughout much of their range, particularly in southern New England where fishery moratoriums have recently been instituted in three states. The alewife run at Bride Brook, a coastal stream in East Lyme, Connecticut, was studied from 2003-06 to assess shifts in demography and life history. Annual censuses of abundance, along with sampling for size, age, and spawning history structure were conducted. These data were compared to similar data in 1966-67 at this site. Recent alewife runs at Bride Brook featured lower abundance and younger, smaller fish that were less likely to be …

Assesment Of Florida Bass, (Micropterus Floridanus), Stocking In Several Arkansas Lake Largemouth Bass, (M. Salmoides), Populations Using Microsatellite Analysis, Ryan Martin Allen

Student Theses and Dissertations

Arkansas largemouth bass populations have been stocked with the exotic Florida bass for several decades to enhance lake fisheries. This study sampled 1,474 bass from eight Arkansas lakes to determine the success of introducing Florida bass alleles and hybridization events between bass species. Microsatellite data was then compared to historical allozyme data. Additionally, relationships were identified between Florida bass allele frequencies and lake characteristics as well as phenotypes and condition and length at age. A wide range of Florida bass allele frequencies were identified between lakes (10 - 70%), with the most highly correlated variable for successful stocking being reservoir …

Time Series Observations Of Species Composition And Behavioral Interactions Of Fish At An Ocean Observatory Off The Coast Of Georgia, Amy E. Paquette

Honors Scholar Theses

The use of ocean observatories is expanding with the potential for collecting serial data with high temporal resolution at multiple sites within an ecosystem. Integration of underwater video cameras in observatory systems allow observation of vagile species and are useful tools for observing variations in behavior over time. In order to assess the utility of using video records for time series behavioral data I analyzed video records from an observatory site in the South Atlantic Bight (SAB) off the Coast of Georgia collected during the month of November in 2000, 2002 and 2004. Data were used to quantify annual variation …

Characterizing The Role Of Phaeobacter In The Mortality Of The Squid, Euprymna Scolopes, Brian Shawn Wong Won

Honors Scholar Theses

The subject of our study is the Hawaiian bobtail squid, Euprymna scolopes, which is known for its model symbiotic relationship with the bioluminescent bacterium, Vibrio fischeri. The interactions between E. scolopes and V. fischeri provide an exemplary model of the biochemical and molecular dynamics of symbiosis since both members can be cultivated separately and V. fischeri can be genetically modified 1. However, in a laboratory setting, the mortality of embryonic E. scolopes can be a recurrent problem. In many of these fatalities, the egg cases display a pink-hued biofilm, and rosy pigmentation has also been noted in the deaths of …

Optimization Of Protein Expression Of Four Transcription Factors Using Chaperone Proteins, Kaitlin Wilson

Honors Scholar Theses

Embryonic stem cells are unique in their ability to grow indefinitely while maintaining both pluripotency and self-renewal capabilities. These stem cells could be the answer to solving many of the debilitating and devastating diseases suffered by humans. Recently, the use of human derived embryonic stem cells has been effective in animal models in the treatment of spinal cord injuries (Kierstead et al., 2005).

Although the study of embryonic stem cells has become increasingly popular in the last decade, there is still much research to be done to increase the expression of valuable embryonic proteins which will induce pluripotency in the …

Fort Richardson Ordnance Detonations And The Harbor Porpoise: A Case Study In Marine Mammal Bioacoustics, Heather Heenehan

Honors Scholar Theses

Hearing is extremely important for cetaceans because it is their “principal sense” (Weilgart, 2007) thus the harbor porpoise and other marine animals are highly dependent on sound for survival. This is why we should care about the impact of noise on animals like the harbor porpoise. Since sound travels so well in water, an explosion, sonar, boat noise, etc. can affect a very large area and thus many different species of marine mammals. Although military actions such as low frequency sonar have made recent news, noise has been affecting cetaceans, especially beaked whales, since at least 1991 (Weilgart, 2007).

This …

Predictors Of Response And Genetic Resistance/Susceptibility In Pigs To Infection With Porcine Reproductive And Respiratory Syndrome Virus, Donald G. Levis, Rodger K. Johnson,, Thomas A. Rathje, Fernando A. Osorio

Department of Animal Science: Faculty Publications

The primary objective of this study was to determine differences in growth rate and expression of specific immune function genes and levels of cytokines between pigs that are more resistant and more susceptible to PRRSV infection. The data generated in this replication were combined with data from a previous replication. At 34 ± 5 days of age (8.2 ± 1.8 kg body weight), 220 weaned pigs free of PRRSV were transported from their farm of origin to the wean-to-finish barn at the Haskell Agricultural Laboratory. The pigs were randomly allotted to one of 16 pens (2.4 m x 4.3 m) …

Analysis And Classification Of Sounds Produced By Asian Elephants (Elephas Maximus), Sharon Stuart Glaeser

Dissertations and Theses

Relatively little is known about the vocal repertoire of Asian elephants (Elephas maximus), and a categorization of basic call types and modifications of these call types by quantitative acoustic parameters is needed to examine acoustic variability within and among call types, to examine individuality, to determine communicative function of calls via playback, to compare species and populations, and to develop rigorous call recognition algorithms for monitoring populations.

This study defines an acoustic repertoire of Asian elephants based on acoustic parameters, compares repertoire usage among groups and individuals, and validates structural distinction among call types through comparison of manual and automated …

Modeling Parasitism Rate And Parasitism Risk: An Illustration Using A Colonially Nesting Songbird, The Red-Winged Blackbird Agelaius Phoeniceus, Max Post Van Der Burg, Larkin A. Powell, Andrew J. Tyre

School of Natural Resources: Faculty Publications

Ornithologists interested in the drivers of nest success and brood parasitism benefit from the development of new analytical approaches. One example is the development of so-called “log exposure” models for analyzing nest success. However, analyses of brood parasitism data have not kept pace with developments in nest success analyses. The standard approach uses logistic regression which does not account for multiple parasitism events, nor does it prevent bias from using observed proportions of parasitized nests. Likewise, logistic regression analyses do not capture fine scale temporal variation in parasitism. At first glance, it might be tempting to apply log exposure models …

Natural Ice-Nucleating Bacteria Increase The Freezing Tolerance Of The Intertidal Bivalve Geukensia Demissa, Alexander M. Mccorkle

Biology Honors Papers

Instead of avoiding freezing, freeze tolerant invertebrates actively initiate controlled ice nucleation at relatively high sub-zero temperatures in extracellular compartments. Most produce proteinaceous ice-nucleators in their hemolymph, however the intertidal bivalve mollusc Geukensia demissa lacks this ability. Instead it utilizes at least one strain of ice-nucleation active (INA) bacteria, Pseudomonas fulva, present in seawater, to induce crystallization in the pallial fluid that fills its mantle cavity. In this study, two additional INA bacteria strains were isolated from the palial fluid of Geukensia demissa: Psychrobacter sp. and Shewanella sp. The ice-nucleation activity of both strains was characterized and Psychrobacter was found …

The Effect Of Breeding Herd Parity Structure On Genetic Improvement Of The Sow Herd, Caitlyn E. Abell

Mahurin Honors College Capstone Experience/Thesis Projects

This study focuses on the value of the genetic lag associated with maintaining sows for additional parities in a commercial swine herd. Three traits were included in this study: number born alive (NBA), 21 day litter weight (W21), and days to market (D250). The economic values assigned to these traits were $22.00/pig, $0.70/lb., and $0.17/day, respectively. The genetic improvement per generation made for each trait was assumed to be 0.3 pigs, 3.0 lbs., and 3.0 days, respectively. It was estimated that the value of the genetic lag associated with retaining a sow to P3, P5, and P7 was $24.80, $46.89, …

Animal Pleasure And Its Moral Significance, Jonathan Balcombe

Sentience Collection

This paper presents arguments for, and evidence in support of, the important role of pleasure in animals’ lives, and outlines its considerable significance to humankind’s relationship to other animals. In the realms of animal sentience, almost all scholarly discussion revolves around its negative aspects: pain, stress, distress, and suffering. By contrast, the positive aspects of sentience – rewards and pleasures – have been rarely broached by scientists. Yet, evolutionary principles predict that animals, like humans, are motivated to seek rewards, and not merely to avoid pain and suffering. Natural selection favours behaviours that enhance survival and procreation. In the conscious, …

Animal Behaviour, Animal Welfare And The Scientific Study Of Affect, David Fraser

Emotion Collection

Many questions about animal welfare involve the affective states of animals (pain, fear, distress) and people look to science to clarify these issues as a basis for practices, policies and standards. However, the science of the mid twentieth century tended to be silent on matters of animal affect for both philosophical and methodological reasons. Philosophically, under the influence of Positivism many scientists considered that the affective states of animals fall outside the scope of science. Certain methodological features of the research also favoured explanations that did not involve affect. The features included the tendency to rely on abstract, quantitative measures …

Fisheries Research Report No. 184 - Macroscopic And Microscopic Description Of Snapper (Pagrus Auratus) Gonads From Shark Bay, Western Australia, Michael C. Mackie, Gary Jackson, Nadia E. Tapp, Jeffrey V. Norriss, Adrian Thomson

Fisheries Research Reports

Since 1997, research on snapper (Pagrus auratus, Sparidae) in the inner gulfs of Shark Bay has focussed on providing biological information required for the management of the regionally important recreational fishery. A major component of this research has been a comprehensive investigation of snapper reproductive biology to determine size and age at maturity, the timing of the spawning season and to estimate batch fecundity. This research has necessitated a review of the macroscopic staging system used for P. auratus in Western Australian waters and the development of a more detailed microscopic system to allow accurate analyses of histological material. Based …

Fisheries Research Report No. 192 - Determination Of A Cost Effective Methodology For Ongoing Age Monitoring Needed For The Management Of Scalefish Fisheries In Western Australia, Montgomery Craine, Ben Rome, Peter Stephenson, Brent S. Wise, D J. Gaughan, R Lenanton, Richard A. Steckis

Fisheries Research Reports

Final FRDC Report – Project 2004/042

Objectives

1. Determine for the 20 major WA scalefish species (4 - 5 in each bioregion) the relative accuracy of structures used to estimate age (e.g. Sectioned/whole otoliths, lengths, otolith weight, other otolith dimensions or some combination of these).

2. For each stock, examine the relative impact on the calculated age-compositions and their effect on model outputs and conclusions from varying (i) the method of ageing used (only where this is possible from available data) (ii) the number of individuals used in the samples (iii) the spatial distribution of the samples used (iv) if …

Social And Economic Evaluation Methods For Fisheries: A Review Of The Literature - Fisheries Research Contract Report No. 21, 2009, Simon Vieira, Jacki Schirmer, Edwina Loxton

Fisheries Research Contract Reports

The Department of Fisheries Western Australia is responsible for managing Western Australia’s fishery resources in a way that is consistent with the principles of Ecologically Sustainable Development (ESD). Implementing these principles in a practical manner for fisheries has involved the development of a new management approach that is termed Ecosystems Based Fisheries Management (EBFM). This process incorporates social and economic factors into the management process along with biological and environmental considerations, at both the Fisheries and regional levels.

To date, minimal work has been done to address social and economic factors in accordance with EBFM. This is primarily due to …

Do Hypothermic Tissue Tolerances Limit Torpor Expression?, Clark J. Cotton, Henry J. Harlow

Biology Faculty Publications

1. Arrest temperatures and Q₁₀ values for extensor digitorum longus (EDL), soleus, trabecula, and jejunum muscle twitch strength, contraction time, and 0.5 relaxation time were calculated for a deep torpor hibernator, white-tailed prairie dog (WTPD) (Cynomys leucurus), a shallow torpor hibernator, black-tailed prairie dog (BTPD) (Cynomys ludovicianus), and a non-hibernator, lab rat (Rattus norvegicus) to test the hypothesis that tissue temperature tolerances limit the depth of expressed torpor.

2. There were no temperature tolerance differences between the tissues of the two species of hibernators. Both hibernating species had arrest temperatures and Q_{10 …}