Resident bull trout (Salvelinus confluentus) may be particularly vulnerable to human related disturbance, however very few studies have focused on resident bull trout populations. The abundance of bull trout is one measure of the strength and potential for persistence of a population. Habitat characteristics may influence resident bull trout abundance to differing degrees and by varying means at multiple spatial scales. We used day and night snorkel counts to assess relative bull trout abundance. A modification of the Forest Service R1/R4 Fish and Fish Habitat Inventory was used to assess habitat characteristics associated with resident bull trout. Logistic and multiple linear regression were used to assess the relationships between resident bull trout abundance and habitat characteristics at the patch (1 to 5 km), reach (0.5 to 1 km) and habitat unit (1 to 100 m) scales. Site categorical variables were used along with quantitative habitat variables to explain among-site and across-site variation in the data. The significance of both quantitative habitat variables and categorical site variables at various spatial scales suggest that relationships between bull trout abundance and habitat characteristics are complex and in part dependent on scale. The characteristics of individual habitat units explained little of the variation in bull trout presence/absence (logistic regression; Somers' D=0.44) and density (multiple linear regression; adjusted R2=0.08) in habitat units, however there were habitat characteristics that were significantly (P≤0.05) correlated to bull trout presence/absence and density in habitat units. The relationships between habitat characteristics and bull trout presence/absence and density varied between habitat unit types. There was a strong quadratic relationship between bull trout abundance and mean summer water temperature at the reach (P=0.004) and patch scales (P=0.001). The mean temperature of patches appears to explain some of the variation in bull trout density at smaller spatial scales, such as reaches and habitat units. An appreciation of the complex nature of scale dependent interactions between bull trout abundance and habitat characteristics may help resource managers make wiser decisions regarding conservation of resident bull trout populations.

The rapid decline in global biodiversity threatens the natural resources, food security, health, and livelihoods of current and future generations. Anthropogenic activities, including the introduction of non-native species, habitat fragmentation and alteration, and resource extraction, have exacerbated this decline. One such imperiled species are Bull Trout (Salvelinus confluentus), which have exhibited significant declines throughout their range and are expected to decline by >30% over the next 21 years in Alberta. While their decline is attributed to a myriad of threats, the degree to which non-native fishes contribute to their decline is uncertain. The objective of my thesis was to investigate the effects of Brook Trout (Salvelinus fontinalis) and Brown Trout (Salmo trutta), two non-native salmonids, on the habitat use and dietary niche of Bull Trout. To address the habitat component, I developed a multi-species N-mixture model using in-stream and land use derived characteristics to assess how Brook Trout and Brown Trout affect Bull Trout abundance in relation to habitat factors. I determined that Brook Trout negatively affect Bull Trout abundance when streams are less than 11°C and lack habitat complexity. Interactions between Brown Trout and Bull Trout are less certain, but larger, lower elevation streams are likely to see reductions in Bull Trout abundance where Brown Trout invasion is present and likely to occur. To address the dietary component, I employed stable isotope analysis to investigate how Brook Trout and Brown Trout interact with the dietary niche of Bull Trout. I determined that Bull Trout in sympatry with both Brook Trout and Brown Trout undergo a niche shift and are displaced from terrestrial-based resources. Furthermore, potential for competitive exclusion exists when resources are low given all species exhibit a high degree of niche overlap ( > 80%) when in sympatry and the amount of niche overlap does not decrease between allopatry and sympatry. The findings of my thesis suggest that both Brook Trout and Brown Trout interfere with the resource use of Bull Trout, on multiple levels, and provides practical guidelines for limiting future declines.

The range of bull trout (Salvelinus confluentus) in the Deschutes River basin has decreased from historic levels due to many factors including dam construction, habitat degradation, brook trout introduction and eradication efforts. While the bull trout population appears to be healthy in the Metolius River-Lake Billy Chinook system they have been largely extirpated from the upper Deschutes River (Buchanan et al. 1997). Little was known about bull trout in the lower Deschutes basin until BPA funded project No. 9405400 began during 1998. In this progress report we describe the findings to date from this multi-year study aimed at determining the life history, habitat needs and limiting factors of bull trout in the lower Deschutes subbasin. Juvenile bull trout and brook trout (Salvelinus fontinalis) relative abundance has been assessed in the Warm Springs River and Shitike Creek since 1999. In the Warm Springs R. the relative densities of juvenile bull trout and brook trout were .003 fish/m2 and .001 fish/m2 respectively during 2002. These densities were the lowest recorded in the Warm Springs River during the period of study. In Shitike Cr. the relative densities of juvenile bull trout and brook trout were .025 fish/m2 and .01 fish/m2 respectively during 2002. The utility of using index reaches to monitor trends in juvenile bull trout and brook trout relative abundance in the Warm Springs R. has been assessed since 1999. During 2002 the mean relative densities of juvenile bull trout within the 2.4 km study area was higher than what was observed in four index reaches. However, the mean relative densities of brook trout was slightly higher in the index reaches than what was observed in the 2.4 km study area. Habitat use by both juvenile bull trout and brook trout was determined in the Warm Springs R. Juvenile bull trout and brook trout were most abundant in pools and glides. However pools and glides comprised less than 20% of the available habitat in the study area during 2002. Multiple-pass spawning ground surveys were conducted during late August through October in the Warm Springs R. and Shitike Cr. during 2002. One-hundred and thirteen (113) redds were enumerated in the Warm Springs R. and 204 redds were found in Shitike Cr. The number of redds enumerated in both the Warm Springs R. and Shitike Cr. were the most redds observed since surveys began in 1998. Spatial and temporal distribution in spawning within the Warm Springs R. and Shitike Cr. is discussed. Juvenile emigration has been monitored in Shitike Creek since 1996. A total of 312 juveniles were estimated to have emigrated from Shitike Cr. during the spring, 2002. Adult escapement was monitored in the Warm Springs R. and Shitike Cr. Thirty adults were recorded at the Warm Springs National Fish Hatchery weir during 2002. This was the highest number of spawning adults recorded to date. A weir equipped with an underwater video camera near the spawning grounds was operated in the Warm Springs R. Thirty-one adults were recorded at the weir in day counts. The adult trap in Shitike Cr. was unsuccessful in capturing adult bull trout during 2002 due to damage from a spring high water event. Thermographs were placed throughout Warm Springs R. and Shitike Cr. to monitor water temperatures during bull trout migration, holding and spawning/rearing periods. During 1999-2002 water temperatures ranged from 11.8-15.4 C near the mouths during adult migration; 11.4-14.6 C during pre-spawning holding; and 6.5-8.4 C during adult spawning and juvenile rearing.

In 2006 and 2007, we surveyed the occurrence of bull trout (Salvelinus confluentus), the relative distributions of bull trout and redband trout (Oncorhynchus mykiss), and stream habitat conditions in the East and West Forks of the Jarbidge River in northeastern Nevada and southern Idaho. We installed passive integrated transponder (PIT) tag interrogation systems at strategic locations within the watershed, and PIT-tagged bull trout were monitored to evaluate individual fish growth, movement, and the connectivity of bull trout between streams. Robust bull trout populations were found in the upper portions of the East Fork Jarbidge River, the West Fork Jarbidge River, and in the Pine, Jack, Dave, and Fall Creeks. Small numbers of bull trout also were found in Slide and Cougar Creeks. Bull trout were numerically dominant in the upper portions of the East Fork Jarbidge River, and in Fall, Dave, Jack, and Pine Creeks, whereas redband trout were numerically dominant throughout the rest of the watershed. The relative abundance of bull trout was notably higher at altitudes above 2,100 m.