Thursday, December 26, 2013

Philosophy of using RAMP to measure vitality, survival, and mortality of animals

Blue sharks and food, WASC

Mortality can occur over varying time frames after an animal is exposed to potentially lethal stressors. The problem of mortality prediction is made more difficult by animal mobility, as animals can become hidden from observation, especially over longer time frames. Then indicator measures must be used to predict cryptic delayed mortality. What is an effective indicator for predicting mortality? Do we observe the animal immediately after stress induction and before leaving our presence, or do we observe the conditions in which the animal was stressed? 

A common approach to predicting delayed animal mortality is to observe the conditions in which stress is induced and use this information as an indicator for mortality.  Animals are experimentally exposed to important stressors and their combinations in a matrix of interactions. Then animals are sampled for mortality after holding them captive for short periods or tagging, releasing, and recapturing or using biotelemetry over longer time frames. Mortality, and its inverse, survival are then modeled from sampled combinations of risk factors. Since there are relatively unlimited sets of risk factors and their interactions, indicator models for mortality based on stressors often will not give realistic estimates or not include important conditions for stress induction.

Alternatively, animal impairment can be observed as an indicator for delayed mortality after exposure to risk factors. Reflex impairment occurs immediately in an animal when it’s neural, muscular, or organ systems are stressed. Summing presence or absence of several reflex actions calculates an index called RAMP (reflex action mortality predictor) which is a direct measure of reflex impairment and vitality. Correlation of RAMP with immediate and delayed mortality make it an indicator for mortality and survival. With RAMP, the approach of predicting mortality is based on direct observations of animal vitality. The animal continually integrates all the effects of experienced risk factors as reflex impairment and communicates it’s health state, vitality, and fitness through the language of RAMP. Other types of animal impairment that have been tested as potential indicators for mortality include physiological variables (cortisol, glucose, lactate, and electrolytes) and injury.  However these measures are not consistently correlated with delayed mortality.

In an effort to ameliorate mortality risk factors, a hybrid approach can be used for predicting cryptic delayed mortality that conserves and integrates information. Instead of asking the question “Does the animal die?” we can ask “When, where, and under what conditions does the animal die?” Animals are observed in experimentally controlled conditions of mortality risk (Davis 2002, Suuronen 2005). Then initial stressor conditions are sampled, as well as time courses for animal impairment and delayed mortality. Relationships between stressor factors, animal impairment, and delayed mortality can be identified and modeled. The resulting knowledge base can be used to test hypotheses about importance of mortality risk factors and efficacy of predicting cryptic delayed mortality using animal impairment as an indicator. Previous research has shown that reflex impairment measured as RAMP is a powerful predictor for cryptic delayed mortality (Davis 2010). After validation, RAMP can be used to test the effects of experimental or natural changes in mortality risk factors such as design of fishing gears, aquaculture rearing conditions, aquarium trade, pollution exposure, climate change, and other potentially risky situations.

Trawl bycatch reduction device, FRDC

The problem of using indicators to predict cryptic delayed mortality is simplified by shifting from modeling mortality in potentially unlimited sets of risk factors to direct, real time measurement of animal impairment and prediction of delayed mortality. This shift in focus to reflex impairment allows for real time testing of animal fitness in systems of interest and is a cheaper, more efficient use of limited research resources than using risk factor indicators for mortality prediction.

Tuesday, December 24, 2013

High discard survival merits exemptions to European Union ban on fishery discards

Atlantic cod, NOAA


The introduction of the obligation to land all catches (eliminate discards) in the recent reform of the Common Fisheries Policy (CFP) represents a fundamental shift in the management approach to European Union fisheries from regulation of landings to regulation of catch. Research has shown that not all discards die. In some cases, the proportion of discarded fish that survive can be substantial, depending on the species, fishery and other technical, biological and environmental factors. If these surviving animals are discarded instead of landed, they can contribute to future stock recruitment.

Article 15 paragraph 4(b) of the CFP regulation allows for the possibility of exemptions from the landing obligation for species for which "scientific evidence demonstrates high survival rates". Taking the first element of this "scientific evidence"- it is important that managers have guidance on protocols and methodologies that should be followed in order to ensure the results of such experiments are scientifically robust. Presently there are no such internationally agreed guidelines. EWG 13-16 has provided guidance on best practice to undertake survival studies. In this regard EWG 13-16 has identified three methodologies for conducting survival experiments i.e. captive observation experiments, vitality/reflex assessments, and tagging/biotelemetry experiments.

Captive observation experiments involve holding animals that have been captured after exposure to fishery stressors. Holding can be in tanks or net pens while short-term survival is observed.  Holding periods typically range from 3-21 days until mortality associated with experimental fishery stressors has abated. Discard survival rates in specific fisheries conditions are then modeled using data from holding experiments. Davis (2002) reviewed an array of potential explanatory variables for discard survival, which can be classified into three broad categories: biological (e.g. species, size, age, physical condition, occurrence of injuries), environmental (e.g. changes in: temperature, depth, light conditions) and operational (e.g. fishing method, catch size & composition, handling practices on deck, time exposed to air). The complexity and interactions of explanatory variables for discard survival could present a problem to fisheries managers because instead of simply asking “Can we discard this species?” it may be necessary to ask “when, where, and under what conditions can we discard this species?” A potentially unlimited variety of fishery condition combinations would need to be modeled for determining discard survival.

Effects of fish size, fishing gear type, and temperature on sablefish mortality, NOAA

Tagging/biotelemetry experiments are similar to captive observation experiments in that animals are captured after exposure to fishery stressors. Then animals are tagged, released, and monitored for survival either by recapture or by biotelemetry.  Survival observations can be made over periods of weeks, months, and years. In addition to the complications of fishery stressor variable interactions, these experiments have the additional complications of including sources of mortality associated with predation and food and habitat availability that are independent of the effects of the initial capture stressors.    

Vitality/reflex assessments are real time in situ determinations of animal vitality and health.  The animal integrates the effects of fishery stressors and lives or dies according to it’s level of vitality impairment. Davis (2010) has shown that calculation of an index for reflex impairment (RAMP, reflex action mortality predictor) based on summing observations of several reflex actions is a robust, quantitative measure of animal vitality that can include the effects of fishery stressors on animal survival. When animals are exposed to fishery stressors and captured, as described above for captive observation experiments and tagging/biotelemetry experiments, they exhibit various degrees of stress and impairment of vitality which can be associated with mortality and survival.  Correlation of RAMP scores with mortality or survival levels observed in captive observation experiments or tagging/biotelemetry experiments makes RAMP a proxy for mortality or survival (Raby et al. 2012). Further RAMP validation can be made by testing with additional holding or tagging experiments in fisheries of interest.

RAMP curves for Atlantic cod, Humborstad et al. 2009

Once validated, RAMP assessments could be used to identify species in a fishery that may have the potential to survive discarding, and that merit an exemption to the Landings Obligation. Where a large majority of individuals of a particular species demonstrated consistently high RAMP scores, and there were very few examples of immediate mortality, this would indicate that species may warrant further investigation to demonstrate its potential for short & long term survival, post-discarding. Using this approach, a large number of species could be assessed (quickly & inexpensively), over a wide range of conditions and for a variety of boats (& discarding practices) throughout the fishery. 

At the same time, continued development of innovative fishing gears and fisher avoidance of high bycatch areas and times can help reduce capture of unwanted species. RAMP can be used to evaluate the survival of animals that are impacted by fishing gears and escape before landing on fishing vessels. The banning of discarding will make the evaluation of mortality rates for animals escaping from fishing gears especially important. "Out of sight and out of mind" will not be a viable strategy with regards to evaluating fishing mortality for gears engineered to enhance escape of bycatch species.

Wednesday, November 27, 2013

Using RAMP to reduce crab mortality associated with trawl gear encounters


Tanner crab, AMCC


Snow crab, AFSC

RAMP measures for crab mortality have been validated and used in field experiments to help reduce the effects of trawl gear encounters by crabs. Hammond et al. 2013 published the results of a study on Tanner and snow crab mortality associated with trawl gear encounters and they are quoted below:

“The study used the RAMP model to investigate whether modifications to the bottom trawl gear, specifically sweeps (cables connecting doors to trawlnet) and footrope (ground-contact gear attached to the trawlnet), reduced the unobserved mortality of snow and Tanner crab. The RAMP models for these species from Stoner et al. (2008) were augmented with additional observations that more than tripled the sample sizes. Alternative configurations of the resulting RAMP models were compared, examining the effects of sex, size, and shell condition, supplementing with injury observations, and application as a categorical or continuous variable. RAMP-estimated mortality rates were then applied to determine if alternative fishing gear reduced unobserved mortality compared with conventional fishing gear. Specifically, mortality rates for raised trawl sweeps (Rose et al., 2010) and larger diameter footropes were compared with rates for conventional configurations (Rose et al., 2013). Both modifications create larger spaces under the gear for crab escapes. These mortality rates were also compared across sex, size, and shell conditions.”

Reflex actions that were tested for RAMP:



“A major advantage to RAMP is the simplicity of just testing reflexes which can be done in hand, thereby removing the need to retain animals for prolonged periods or to run costly and time consuming physiological lab tests. In the case of Chionoecetes spp. interacting with the trawl gear, Stoner et al. (2008) and this study have shown the reflex impairment score to be a statistically robust predictor of delayed mortality. The effect of a single additional reflex impairment multiplies the odds of mortality (p/(1- p)) by the exponentiated slope from the logistic regression (Faraway, 2006). The multipliers for snow and Tanner crab were 3.0 and 2.9, respectively. Thus, the absence of an additional reflex would roughly triple a crab’s odds of mortality.”


RAMP curves for Tanner and snow crabs:

“Logistic regression analysis of reflexes to predict mortality (RAMP model) indicated that sex, shell condition, and size did not significantly affect the relationship between reflex impairment scores and mortality. When considering the effect of the gear type, logistic regression of the RAMP-predicted mortality found that gear type, sex, shell condition, size, and the gear × shell condition interaction were significant predictor variables for snow crab mortality. Tanner crab showed gear type, shell condition, and their interaction to be significant with the footrope effect. In addition, gear type, shell condition, their interaction, and size were significant with the effect of sweeps. Although shell condition was shown to be statistically significant, the overall mortality was lower with an alternative gear than with a conventional gear, strengthening the case that alternative sweeps and footropes could be used to help reduce unobserved mortality.”

Experimental trawl gear used in study:


Results of gear modification on crab mortality:



“Previous studies have shown that reflex impairment is a sign of stress that can be correlated with mortality outcomes in fish and crab (Davis and Ottmar, 2006; Davis, 2007, 2009; Stoner et al., 2008; Humborstad et al., 2009; Stoner, 2009). One of the limitations of this approach is that we cannot account for the possible mortality that occurs as a result of predation on the crab or fish due to its potentially weakened state from its encounters with the gear. Thus, the RAMP model yields a good relative measure of mortality, if not an absolute measure of mortality. Our study took the RAMP model one step further and used it to assess whether alternative sweeps and footropes could reduce unobserved fishing mortality; the data showed this to be the case.”

“This study is one example of many possible practical applications of the RAMP model. In the context of bycatch reduction technology and modified fishing gear, the RAMP model could prove to be a very useful tool to determine if the alternative gear or modifications to the current fishing gear could reduce the many types of bycatch mortality.”



Wednesday, September 18, 2013

Estimating dungeness crab bycatch mortality rates

Yochum


Two approaches are used to estimate dungeness crab bycatch mortality, allowing for a field validation of the RAMP approach (Yochum et al. 2013).

Yochum et al. 2013

Preliminary results are available for using RAMP to estimate dungeness crab bycatch mortality in Oregon fisheries; including commercial crabbing, recreational crabbing, and trawling.

Yochum et al. 2013

More information on this project is available (YochumStoner and Yochum 2012, and NOAA 2013).

Sunday, August 11, 2013

Measuring recovery of bycatch turtles from hypoxia using RAMP


Midland painted turtle, Harding 2009

Reflex impairment was tested in recovering freshwater painted turtles (Chrysemys picta) that were exposed to hypoxia as bycatch in fyke net fisheries (LeDain et al. 2013).



"Adapting the use of RAMP from fish to gauge the severity of anoxia on painted turtles was effective. All the reflexes used in this study indicated some level of impairment following submergence, with some reflexes being more sensitive than others. The tactile responses to the limbs and head were the most insensitive to submergence: they were often the only remaining reflexes after submergence (Table 1). Thus, the absence of tactile responses could be indicative of turtles requiring assisted recovery the most. Other species of turtles may require different types of reflex responses that suit their morphology better (e.g., loggerhead turtles, Caretta caretta, are too large to use a hand holding ‘‘escape response’’). However, a tactile response is a universal reflex that can be used in all species. Employing a presence/absence scoring reduced subjectivity and will ease the training of commercial fishers, researchers, and government and nongovernment agencies on the use of the RII. In sum, we feel the RII is a very useful tool to assess turtle condition."


The authors suggest that tests for reflex impairment (RII, reflex impairment index) modeled after RAMP methodology can be useful for assessing assisted recovery and potential mortality in turtle bycatch.

"Although reduction of turtle mortality can be achieved through educating fishers on proper handling and recovery methods for turtles, the first course of action should be checking nets frequently and implementing seasonal or area restrictions. Bycatch reduction devices (turtle excluders and escape modifications) are also effective in reducing the number of turtles caught in nets while maintaining fish catch (Guillory and Prejean 1998; Lowry et al. 2005; Fratto et al. 2008; Hart and Crowder 2011; Larocque et al. 2012c). However, since turtle bycatch can still occur despite these conservation measures, albeit at reduced levels, examining reflex impairment is an effective and inexpensive way to discern whether turtles require assisted recovery after incidental capture in submerged nets."


Wednesday, July 10, 2013

Using RAMP to estimate fisheries discard mortality in the southern New England flatfish complex


Yellowtail flounder NOAA


Winter flounder NOAA


Windowpane flounder NOAA

RAMP curves were estimated for yellowtail flounder, winter flounder, and windowpane flounder in the southern New England flatfish complex (Barkley et al. 2012).  Fish were treated with experimental trawl and air exposures and sublethal and lethal effects on reflex impairment noted.  Seven reflex actions were tested and responses were combined into RAMP scores.


RAMP curves were calculated (see also for anatomy of a RAMP curve):



RAMP was determined to be a useful method for predicting discard mortality in the flatfish complex and can be used for rapid, real time, onboard sampling of discard mortality rates:

"Implications
The utility of RAMP is the ability to test the reflexes of fish caught and use the RAMP score to predict mortality using the reflex impairment-mortality relationship. Creating reflex impairment-mortality relationships opens up the possibilities to expand RAMP sampling and to gain a more accurate representation of the total commercial discard mortality rates. These reflex methods can be applied to a subsample of fish during commercial fishing trips to allow for a more representative discard mortality estimate. The RAMP methods are also not limited to a particular gear type, so fish caught in the large-mesh otter trawl fishery as well as fish caught in the scallop fishery can be assessed using the same reflexes and can be compared to the same reflex impairment-mortality relationship. This allows for the estimation of discard mortality over a wide spectrum of gears, tow-times, and time on deck.

Summary of conclusions
- The suite of seven reflexes is a reliable indicator of survivability in yellowtail and winter flounder.
  • Tow-time was not as important as a stressor on flounder as air exposure. 
  • The results indicate that the discard mortality of yellowtail and winter flounder may be reduced onboard fishing vessels by limiting the amount of time the fish are on a dry deck.
  • Windowpane flounder are less hearty then yellowtail and winter flounder, and may not be able to survival discarding.
  • The reflex impairment-mortality relationships developed from this project for yellowtail flounder and winter flounder can be used to estimate the discard mortality rate of fish, based on at-sea RAMP sampling over multiple gear types."
Realtime knowledge of discard mortality rates can be used in adjusting fishing practices to decrease and avoid discard mortality, as well as for testing new fishing gears designed to reduce bycatch capture and discarding.

Friday, March 15, 2013

C&R fishing, physiology, RAMP, and fitness outcomes

A study by Cooke et al. 2013 reviewed the physiological consequences of C&R (catch and release) fishing. They concluded that:

"An underlying tenet of catch-and-release studies that incorporate physiological tools is that a link exists between physiological status and fitness. In reality, finding such relationships has been elusive, with further extensions of individual-level impacts to fish populations even more dubious."

They presented a conceptual scheme for the development of physiological stress in C&R fishes:


Cooke et al. 2013, Figure 1. "Schematic of the general stress response to fisheries capture. The thick black solid line labelled ‘general response’ provides an example of a typical response of a physiological indicator of stress, such as plasma cortisol, to a fisheries capture event. Following the initial response, a negative feedback occurs and recovery is initiated. The stressors connected by a bracket to the general response line exemplify the multiple, interactive and potentially cumulative stressors involved in a fisheries capture event, all of which contribute to the general stress response and are dependent on environmental conditions and the initial condition of the individual fish. The thick black broken line represents a disrupted recovery pattern, where recovery to routine physiological condition does not occur and there are life history consequences. The grey broken line represents an example recovery profile for individuals held in facilitated recovery gear, where the general physiological response is muted and recovery to routine condition is accelerated."

Observations of physiological stress in fishes have measured short-term changes associated with C&R angling.  However Cooke et al. 2013 conclude that:

"Beyond the problems noted previously, there is mounting evidence that, taken alone, conventional blood chemistry measures may not be definitive enough to forecast long-term survival following fisheries-related injuries and stressors (see Skomal & Bernal 2010; Pankhurst 2011; Renshaw et al. 2012), although another possible explanation is that researchers are failing to use the appropriate physiological indices (Renshaw et al. 2012; see section below on use of a limited set of metrics). Although now technically feasible to attempt to link physiological condition to fate, it has thus far failed to enhance C&R science with respect to long-term outcomes. However, with shorter-term outcomes (e.g. behavioural endpoints) and when used for conducting mechanistic laboratory studies to complement field studies, physiology has yielded valuable insight."

Prediction of delayed mortality has been successful with observations of reflex impairment (RAMP) in fishes from C&R fisheries. Cooke et al. 2013 note:

“Unlike traditional physiological tools, there has been considerable success in using a simple reflex impairment index [reflex assessment mortality predictors (RAMP) score] to predict delayed mortality for fish released from commercial fishing gears and subsequently monitored in large tanks (summarised in Davis 2010) or released into the wild with telemetry tags (Raby et al. 2012). The success of RAMP for predicting mortality is likely attributed to its holistic nature: underlying physiological impairments are integrated into whole-animal responses that can easily be assessed in a quantitative way. In the context of C&R, Campbell et al. (2010) developed a condition index for red snapper, Lutjanus campechanus Poey, that combined reflex impairment with indicators of barotrauma and was associated with immediate mortality and proxy indicators of post-release predation risk (post-release mortality was not assessed directly).

Additional research is needed to develop predictors of fate in C&R science and the logical focus should be on fisheries for which significant mortality is observed that seems to be independent of physical injury (e.g. deep hooking). Reflex assessment mortality predictors will not replace traditional physiological metrics, but it is a valid and inexpensive complement and could be incorporated into any study of C&R mortality even if the project team has little or no experience in physiological research.”

In communicating the results of C&R fishing to management and fishing communities, Cooke et al. 2013 found:

“Although physiological tools can play an important role in understanding and mitigating the sublethal consequences of C&R on fishes (Cooke et al. 2002; Wikelski & Cooke 2006; Arlinghaus et al. 2007a), it is important that the findings of physiological studies be interpreted correctly and used appropriately. It is difficult to translate the physiological results of C&R research into best practices given the limitations listed previously. Where investigators have identified physiological consequences of C&R, findings must therefore be interpreted cautiously with results not extrapolated beyond the boundaries of their study design. For instance, Wedemeyer and Wydoski (2008) examined the physiological response of some economically important salmonids to C&R fishing, and they interpreted many significant trends between angling duration and blood parameters as ‘transient’ effects, ‘generally mild’ and of ‘little physiological consequence’, without fully exploring a broader suite of metrics (e.g. cortisol) shown to be associated with angling stress in other recreational fishes. Moreover, their study was restricted to moderate water temperatures, like many C&R studies (reviewed in Gale et al. in press). The results of their study were then noticed by the angling community, which further extrapolated the findings on angling web sites, message boards and blogs, inferring that C&R in general has negligible consequences on trout and without considering how factors not explored in their study such as water temperature could alter the outcome for the fish. Consequently and likely quite unintentionally on the part of researchers, peer-to-peer communication pathways common within the recreational angling community could foster a shift of the social norm about the potential conservation value of C&R. When management implications arising from C&R physiological studies are presented in the peer reviewed literature, authors should thus provide appropriate caveats, context and draw conclusions carefully. Although the interpretation of physiological data can be subjective, it is suggested that such findings always be viewed in the context of the broader stress response and recovery probable for a given species/population (Fig. 1).”


Catch and release largemouth bass, University of Illinois

Cooke et al. have summarized important steps to take for minimizing mortality in C&R fisheries in an effort to standardize these protocols according to scientific principles (see Arlinghaus et al. 2007Pelletier et al. 2007):

"General guidelines for catch-and-release recreational angling to conserve fishery resources:

Minimize angling duration
The duration of the angling event increases the physiological disturbance from which the fish has to recover. Angling results in a combination of aerobic and anaerobic exercise that causes a number of physiological changes such as the depletion of energy reserves, accumulation of lactate, and alterations in acid/base status. Studies have shown that these physiological disturbances are generally more severe with increasing angling duration. In addition, the length of time required for physiological variables to return to resting levels tends to increase with angling duration.Therefore, anglers should try to land fish as quickly as possible to minimize the duration of the exercise and the related physiological disturbance.There are techniques for achieving shorter angling durations, such as choosing equipment that matches the size of fish that are expected to be encountered.

Minimize air exposure
Air exposure is harmful to fish. Air exposure occurs upon capture when a fish is removed from the hook, weighed, measured and/or held for photo opportunities. When a fish is exposed to air, the gill lamellae collapse causing the gill filaments to stick together. This has several negative physiological implications. It can cause severe anoxia. Fish that are exposed to air typically experience greater acid/base disturbance (fluctuation of pH in the blood) than those which are not. When fish are exposed to air for a significant length of time, they require a much longer time to return to their normal state. Furthermore, extended air exposure (beyond a species-specific timing threshold) can eventually result in permanent tissue damage or death. Although different fish species vary in their tolerance to air exposure, it is recommended to minimize the duration of the air exposure whenever possible.

Avoid angling in extreme water temperatures
Most fish are ectothermic (they cannot regulate their own body temperature) so the environment regulates their temperature. Any changes in the ambient water temperature can have a significant impact on their cellular function, protein structure, enzyme activity, diffusion rates and metabolism. In addition, the amount of dissolved oxygen in water is lower at higher water temperatures. Angling stressors tend to be magnified at higher water temperatures as reflected in strong relationships between water temperature and mortality for several species. On the other hand, extremely cold temperatures likely also have detrimental effects, although this has been poorly studied to date. Although individual species exhibit different thermal tolerances, catch-and-release angling has the potential to be harmful at extreme water temperatures. In some jurisdictions, there are restrictions on angling when water temperatures exceed some threshold. Since water temperature exerts control over almost all physiological processes in fish, extreme water temperatures are undoubtedly conditions in which fishes are most vulnerable and where angling should be avoided.

Use barbless hooks and artificial lures/flies
Hooks are used to capture fishes. Therefore, hook design is an important element to consider when attempting to reduce hooking related injuries and mortality. Hooks with barbs can lead to greater injury than barbless hooks and even contribute to mortality, although the literature accounts are disparate. However, barbless hooks can minimize the amount of harm caused by reducing tissue damage at the point of hook entry and by reducing the amount of time required to remove a hook. Since there is no barb, the hook can easily be removed. Some studies show that circle hook can be an effective tool in catch-and-release fisheries, when used properly under certain conditions [see section on circle hooks]. The type of bait used is another important factor in fish injuries. Live/organic baits (e.g., worms) used on hooks can be ingested and the hook becomes lodged into the viscera. This makes it hard to remove the hook and it will likely cause damage to the vital organs/tissue during the process. Artificial lures or flies do not get ingested as much so there is minimal damage to the vital organs/tissues from the hook(s). Barbless hooks and artificial lures/flies can greatly reduce handling time, hooking injuries and the likelihood of mortality.

Refrain from angling fish during reproductive period
The reproductive period is the time during which fish attept to produce off-spring and is thus critical for sustaining fish populations. Angling fish during their reproductive period canl reduce the number of off-spring that could contribute the population. Some species, like the largemouth bass, provide parental care and protection for their off-spring. If this dad is removed from the nest, even for a brief moment, its off-spring become extremely vulnerable to predators. Thus, angling immediately prior to or during the reproductive period could affect fitness and should be avoided."

Saturday, March 2, 2013

Approaches for modeling and predicting bycatch mortality

Modeling and prediction of bycatch mortality can be approached in several ways. Efforts can be focused on prediction from knowledge of controlling environmental factors and fishing processes encountered by animals. Alternatively, efforts can be focused on prediction from knowledge of animal condition that integrates effects of fishing factors. A third hybrid approach combines information about animal condition and controlling fishing factors.

Fishing is conducted in freshwater and seawater, with catch retained, discarded, released, or escaped from commercial, recreational, catch and release, and subsistence fisheries. In all cases, knowledge of target and non-target fishing mortality is essential for management and conservation of fisheries stocks and ecosystems. Fishing occurs under a variety of environmental and operational conditions. Examples of fishing gears include trawls, seines, traps, dredges, hook and line, gill nets, lift nets, and falling gear. While immediate mortality is evident for non-target bycatch discards, delayed mortality is generally hidden from view for discards and escapees from fishing gears and operations.

Fishing factors include a range of types for discards and escapees. Master controlling variables include temperature, air exposure, gear injury, fatigue and exhaustion, fish size, barotrauma, and predators. Synergistic effects of combinations of factors can be significant controllers of mortality.

Davis 2002 capture and discard

Suuronen 2005 capture and escape

Bycatch mortality can be modeled by experimental determination of relationships among environmental and operational factors and mortality rates of various species, either under laboratory or field conditions. Since there are an almost infinite number of factor combinations in a fishery, it is important to prioritize the stress and mortality effects of factors and factor combinations. Primary effects are then modeled for mortality rates

Effects of fish size, fishing gear type, and temperature on sablefish mortality, AFSC

A second approach to modeling bycatch mortality is to shift focus from environmental and operational fishing conditions to a more limited set of predictors for mortality based on animal condition. These include wounding, physiological impairment, and reflex impairment. Reflex impairment and RAMP have been found to be the most efficient and inclusive predictors of immediate and delayed mortality.


RAMP curves for the relationships between reflex impairment and species mortality are constructed under simulated or actual fishing conditions that are expected.


Using constructed RAMP curves, bycatch mortality rates can be measured and predicted in fishing operations through time and space by sampling fish from fisheries.



Hybrid combinations of the two modeling approaches can be used if data are available. Animals that are captured or escape from fishing gears can be sampled for RAMP while environmental and operational conditions are noted. Then relationships among these factors can be modeled.

Effect of air exposure on Atlantic cod reflex impairment and mortality, Humborstad et al. 2009

Survival of bycatch species escaping purse seines

Many species of schooling fish are caught using purse seines.


Fish in schools caught by purse seines are generally in aggregations of one species.  However there can also be fish that are too small, too many, or other species such as turtles, porpoise, and tuna that are not designated for capture in the fishery. For management purposes, these non-target animals are considered bycatch and are discarded, either from the fishing gear or from the catching vessel.  



What are the mortality rates for bycatch species that are discarded or escape from purse seines? Experiments have been designed to answer this question for mackerel that are "slipped" from a purse seine because too many are caught in a net set.



Mortality rates of mackerel were related to a stress index of crowding density and time.


Huse and Vold 2010  Stress indices (fish density (kg m−1) times crowding time) from Lockwood et al. (1983) (diamonds) and from our own experiments (triangles). The exponential line is fitted to the data from Lockwood et al.  

Reflex impairment and RAMP can be used in field survival and mortality experiments. Observations of reflex impairment for fishes, turtles, and porpoise can be made in holding nets and related to vitality and mortality using RAMP calculations. Note that the mortality curve for mackerel is similar to RAMP curves for other species.  

Use of RAMP in field experiments and fishing operations can result in large amounts of real time, high quality data on discarded or escaped bycatch vitality and mortality.  This data is key for the effective management of fisheries stocks and conservation of ocean ecosystems.

Survival of bycatch species escaping trawls

New fishing trawl gears are designed to facilitate the escape of animal species that would otherwise be landed as bycatch and discarded. Knowledge of animal behavior such as startle, rheotaxis, phototaxis, avoidance, and sheltering is used to facilitate escape of potential bycatch species from trawls.


He, editor

Survival of animals that escape from trawls is an important aspect of conservation. Any mortality of escapees must be accounted for as bycatch mortality in fisheries management.


Rahikainen et al. 2004

Measurement of survival and mortality rates for escapees is a difficult research problem. One approach is to design trawls and nets that can sample escapees for later observation of behavior, recovery from capture, or mortality.


 Suuronen 2005

Reflex actions and volitional behavior can be observed in cages after animals have escaped from trawls and through their recovery period. RAMP can validated during these experiments and used to predict mortality rates for animals observed to escape from fishing gears.

Project Survival

Wednesday, February 27, 2013

Banning fishery discards and using RAMP

European Union fishery ministers have agreed to phase out the practice of discarding unwanted or regulated animals (bycatch) from landed catches.  The practice of discarding bycatch can be tremendously wasteful of fishery resources including fish, elasmobranchs, invertebrates, birds, amphibians, reptiles, and mammals.

Discarding, Richard

Banning discarding from fisheries requires total retention of animals caught, which must be landed and processed.  As many of these discarded species are of low economic value, efforts are made to design fishing gears that avoid catching bycatch species in the first place.

Suuronen 2005

A key assumption in the ethical design of fishing gears that do not catch bycatch and discarded species is that animals survive gear encounters. Escaping animals must have significant survival rates after gear encounters if they are to continue contributing to recruitment and ecosystem function. If animals escape from fishing gears and do not survive, they are the same problem as discards in fisheries, except that they are hidden.

Suuronen 2005

Measurement of mortality rates for discards and for animals that escape from fishing gears is vital to the management of fisheries, as they represent a significant form of fishing mortality. Discard and escapee mortality rates have been difficult to measure and new, effective methods are needed.

Viability estimates for Pacific halibut bycatch, based on vitality codes (1-4) for injury and activity have been incorporated into fisheries management for several years.  Recent research results by BenoĆ®t et al. 2012 on discard mortality have suggested methods based on fishery-scale sampling with semi-quantitative vitality codes (excellent-1, good-2, poor-3, and moribund-4) and conditional reasoning.


BenoĆ®t et al. 2012. Post-capture survival probability over time (h) for five southern Gulf of St. Lawrence marine fish taxa (panels), as a function of their pre-holding vitality class score (colours). The shaded areas represent the 95% confidence band for the Kaplan–Meier empirical survival curve for each vitality class, plotted up to the time at which the last observation was made for a given taxon and vitality level. The lines represent the fits of the selected model for each species and vitality class. For cod and plaice, the fits for models M3 and M4 are presented using solid lines and dashed lines respectively (note that these lines largely overlap). The location of the circles along the line and the size of the circles indicate respectively the times at which observations were censored and the proportion of censored observations for the taxon and vitality level at that time.

Reflex impairment measured by RAMP is a quantitative measure of vitality that gives increased resolution and accuracy to the determination of health and survival of discards and animals encountering and escaping fishing gears. Future research on this subject can benefit from the incorporation of fishery-scale sampling of RAMP for discards and for animals escaping from fishing gears.

The banning of discarding will make the evaluation of mortality rates for animals escaping from fishing gears especially important. "Out of sight and out of mind" will not be a viable strategy with regards to evaluating fishing mortality for gears engineered to enhance escape of bycatch species.

Saturday, February 23, 2013

Using RAMP to help automate aquaculture operations


Net pen for fish culture (NOAA).

Aquaculture of animals in tanks and net pens requires monitoring and maintenance of vitality, health, and normal behavior for efficient and economic operations. Presently, health is monitored by sampling for disease outbreaks, while vitality and behavior are observed by aquaculture technicians during the course of their daily activities of feeding, cleaning, and operation of facilities.


Inside net pen for fish culture (NOAA).

In tanks and net pens, animals can swim and feed normally. They can also respond to stimuli administered inside their rearing environment, such as light flashes, sound bursts, food scent, and touch. Responses to these stimuli can be in the form of reflex actions such as startle, orientation, depth distribution, aggregation, and dispersal. These reflex responses can be observed remotely and automatically using video, infra-red, and sonar technology in light and dark conditions. Reflex responses can be recorded and summed as RAMP scores for measures of impairment and correlation with mortality.

RAMP can be a quantitive measure of animal state and be used to help automate aquaculture monitoring and maintenance. When impaired responses to stimuli are observed, alarms can be triggered and technical staff can be alerted to changes in animal vitality, health, and behavior. Then on site alteration of operations can bring rearing conditions back to nominal states and return animals and their reflex actions to vitality and health.

Future research in aquaculture can consider the use of RAMP and automated reflex testing for development of efficient operation protocols and quality assurance. RAMP can also be used as a research tool for testing and validating new designs for aquaculture operations that optimize animal vitality and health.

Friday, February 22, 2013

Field validation of dungeness crab RAMP underway

Crabs tell us about their vitality, using the language of reflex impairment and RAMP.

Yochum

Field validation of dungeness crab RAMP measures for discard mortality are underway off Newport, Oregon.  These field trials with combined RAMP measurements, fishery conditions, and mark and recapture experiments are a large scale field effort to develop RAMP tools for quantification of bycatch mortality (NOAA 2013).

Undersize Dungeness crab marked with a green T-bar spaghetti tag and released as part of the RAMP field validation experiment. The tag is inserted through the suture at the back of the carapace so that it can be retained through a molt. Picture and caption from Stoner and Yochum, 2013.