Category Archives: Chinook Salmon

May Shasta-Trinity Operations Prove Deadly for Salmon

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Back on May 3, 2021, I warned about how bad things were getting for salmon in the Sacramento River below Shasta Reservoir, even compared to drought years 2014 and 2015. With high-volume releases from Shasta storage through almost the end of May, conditions went from bad to worse. Water year 2021 began as a critical drought year after a dry year, with everyone scrambling to save the winter-run salmon in the Sacramento River below Shasta and provide water for downstream Central Valley Project (CVP) contractors. The latter objective has won outright.

Water releases to the upper Sacramento River were even higher in May than April (Figure 1). Releases remained significantly higher than either 2014 or 2015. Such high releases sustained water deliveries to the CVP’s Sacramento River Settlement Contractors at high levels despite reduced allocations for a critically dry year with low storage.

Water temperatures were also significantly higher in May (Figure 2), creating lethal conditions (>53ºF) for eggs of winter-run salmon, which typically begin spawning in April. Peak spawning occurs in June and July, with 60-90% of total spawning by the end of July, even with spawning delayed in warmer years.1 Spawning has likely been delayed in 2021 because of the warmer water temperatures. Delayed spawning also has deleterious effects on egg survival and smolt production.2

The high-volume releases have led to lower total Shasta Reservoir storage at the end of May in 2021 compared to 2014 and 2015 (Figure 3). Inflows to the reservoir (not shown) were similar in the three years – averaging for May just above 3000 cubic feet per second (cfs).

Reclamation has sustained the volume of Shasta Reservoir’s cold-water pool through May 2021 at 2014 and 2015 levels (Figure 4), despite the higher releases and lower storage in 2021. Reclamation did that in part by bypassing power plant releases that draw colder water and instead drawing warmer surface water from “river outlets” nearer the top of the dam (Figure 5).

Reclamation has yet to gain approval for summer operations, but the draft Temperature Management Plan (TMP) it submitted to the State Water Board on May 5 proposed Shasta-Keswick releases of 8000-10,000 cfs. Reclamation’s May 5 draft plan also proposed a target temperature of 56ºF for the 10-mile spawning reach of the Sacramento River just downstream of Keswick Reservoir, around Redding. Such temperatures will lead to high egg mortality this summer. Reclamation’s draft plan included significant inputs of warmer water (>53ºF) originating in Trinity Reservoir and exported to the Sacramento River via the Spring Creek Tunnel from Whiskeytown Reservoir to Keswick Reservoir.

The higher Shasta releases and warmer Trinity water, while proving substantial power generation and water supply deliveries, are depleting already-too-low Trinity and Shasta reservoir storage. They also preclude maintaining the safe water temperature of 53ºF that would minimize egg mortality this summer in the Sacramento River’s spawning reach. Lower storage also results in late summer loss of access to the cold-water pool in Shasta Reservoir.

In a May 21, 2021 letter to Reclamation, the State Water Resources Control Board commented on Reclamation’s draft TMP. The State Water Board’s letter suggested maintaining an end-of-September Shasta target storage of 1,250,000 acre-feet, stating that this would represent a “reasonable balance between temperature control this year, maintaining some carryover storage going into next year, and providing for consumptive water supply needs.” The main problem with the State Water Board’s target 1.25 MAF end-of-September storage is that it would still result in >50% (and potentially much higher) salmon egg mortality. The State Water Board’s target does not correct warm Trinity transfers, excessive Shasta and Trinity releases, and low Shasta and Trinity storage. It would also leave no cold water for Sacramento River fall-run salmon in the fall. The low storage levels may even limit access to cold-water pools in the reservoirs.

Eliminating 80-85% of the warm Trinity transfers and reducing cold water releases from Shasta would save a much greater percentage of the fish in the Sacramento and Trinity-Klamath river systems. It could maintain safe 53-55ºF spawning reach temperatures through the summer, while preserving approximately 500,000 acre-ft of Shasta and Trinity storage for next year.

Such an alternative would cut power production and Sacramento Valley water supply deliveries to roughly half of the levels in 2014 and 2015. In this regard it bears remembering that senior water contractors chose not to absorb some of the water cutbacks in 2020, the first year of the latest drought. Now, drastic delivery cuts are necessary to avoid the third disaster for winter-run salmon in seven years.

For more complete discussion, see CSPA’s May 23, 2021 alternate Temperature Management Plan at https://www.waterboards.ca.gov/waterrights/water_issues/programs/drought/sacramento_river/.

Figure 1. Keswick Reservoir water releases (cfs) in April-May 2014, 2015, and 2021

Figure 2. Keswick Reservoir water temperatures (ºF) in April-May 2014, 2015, and 2021.

Figure 3. Shasta Reservoir storage (acre-feet) in April-May 2014, 2015, and 2021.

Figure 4. Shasta Reservoir cold-water-pool volume (1000s of acre-ft) in water years 2014 (red line), 2015 (purple line), and 2021 (black line). Also shown is average (shaded) and two wetter years. Source.

Figure 5. Shasta Reservoir pool configuration and release sources on May 18, 2021. Temperature Control Device (TCD) gate operation is also shown. Note the combination of turquoise from TCD gates and orange from river outlet water sources provided Shasta releases on May 18.

  1. Source. ↩
  2. For further discussion, see E. Dusek Jennings and Henrdix (2020), Spawn Timing of Winter-Run Chinook Salmon in the Upper Sacramento River.  Available at: https://escholarship.org/uc/item/00c1r2mz ↩

Upper Sacramento River Summer Water Temperatures – Lesson #6: 53ºF Is Key

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Following a series of posts, this is the last post in a series on the lessons learned by the National Marine Fisheries Service (NMFS) from the 2013-2015 drought that devastated Sacramento River salmon populations. This post addresses Lesson #6. The will be the last in the series because the past has become the present, and the focus must now shift to drought conditions and management in 2021 and beyond.1

The best science is that a 53oF daily-average temperature (DAT) is protective of salmon eggs/embryos in their gravel redds in the Sacramento River in the spring and summer spawning season.  But the Bureau of Reclamation, without enough pushback from NMFS and the State Water Board, continues to manage for higher water temperatures in the 10-mile spawning reach of the Sacramento River from Keswick Dam (River Mile 300) downstream to the mouth of Clear Creek (RM 290).2

A 53oF DAT is close to the 55oF seven-day-average-daily-maximum temperature (7DADM) that NMFS cited in its Lesson #6, quoted above.  The Bureau of Reclamation met that target in wet year 2019 (Figure 1).

Protection was compromised in 2020 (Figure 2), as Reclamation only maintained the 53oF DAT at Clear Creek in the peak mid-summer egg and embryo period.  Since the 2019 Biological Opinion, this  has become Reclamation’s dry-year strategy.  This dry-year strategy is a partial improvement over the prior dry-year strategy of 56ºF DAT at Clear Creek that Reclamation employed in 2015 (Figure 3), when there was very low over-summer survival of eggs and embryos, and very little fry and smolt production, of winter-run salmon.

Water temperatures were even higher in May 2021, reaching 58-62oF early in the month (Figure 4).  Such temperatures were high enough to compromise the health and reproductive success of the many pre-spawn adults holding below Keswick Dam.  First, elevated water temperatures delay spawning.  Second, adults have higher disease vulnerability at water temperatures above 60oF.  Third, eggs and embryos from holding adults subjected to water temperatures higher than 60oF have higher pre-hatch mortalities and abnormalities.

With tentative approval by the State Water Board of Reclamation’s draft summer temperature management plan for 2021, we can expect a 56oF DAT at Clear Creek target for the peak June-July egg incubation season.  Such operation allows significant hydropower production and water deliveries from Shasta storage releases, as well as water exports from the Trinity River.  If these were curtailed, Reclamation could achieve a target of 53oF DAT at Clear Creek and save salmon.

Figure 1. Water temperatures May-October, 2019 in the Sacramento River at Keswick Dam-KWK (RM 300), Redding-SAC (RM 295), Clear Creek-CCR (RM 290), and Balls Ferry-BSF (RM 276).

Figure 2. Water temperatures May-October, 2020 in the Sacramento River at Keswick Dam-KWK (RM 300), Redding-SAC (RM 295), Clear Creek-CCR (RM 290), and Balls Ferry-BSF (RM 276).

Figure 3. Water temperatures May-October, 2015 in the Sacramento River at Keswick Dam-KWK (RM 300), Redding-SAC (RM 295), Clear Creek-CCR (RM 290), and Balls Ferry-BSF (RM 276).

Figure 4. Daily average water temperature in the winter-run salmon spawning reach of the Sacramento River below Keswick Dam (KWK – RM 300) and above Clear Creek (CCR – RM 290) in April-May 2021. Safe level for holding adult salmon for reproduction success is 56ºF. The safe level for disease potential in holding adults is 60ºF.

Figure 4. Water temperatures in the Sacramento River at the lower end of the spawning reach above Clear Creek (CCR), May 1-May 30, 2021.

 

 

Shasta Reservoir Operations, April 2021 Recap – A Bad Start to an Awful Year

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April 2021 is a month for the record books. Central Valley Project (CVP) operations of the Shasta-Trinity Division were beyond the pale. Water year 2021 began as a critical drought year after a dry year, with everyone scrambling to save the winter-run salmon in the Sacramento River below Shasta and provide water for downstream CVP contractors. The two opposing goals have proven impossible to meet. With no approved operations plan, the US Bureau of Reclamation (Reclamation) moved ahead to fulfill its water contractor needs at the expense of the federally-and state-listed endangered winter-run salmon, other fisheries, and carryover storage for 2022.

Water releases in April to the Sacramento River below Shasta were significantly higher in 2021 than in the most recent critical drought years 2014 and 2015 (Figure 1). With these higher releases, Shasta storage, which began ahead of 2014, ended up lower than 2014 (Figure 2). As a consequence, Shasta’s cold-water pool has also fallen behind what it was in both 2014 and 2015 (Figure 3). In both 2014 and 2015, releases of warm water from Lake Shasta led to extremely high spring-summer egg mortality, devastating the winter-run spawning year cohort. In both years, the cold-water pool in Shasta simply gave out before the end of summer.

In 2021, water temperatures in the Sacramento River below Shasta have already risen well above the safe level (Figure 4) as Reclamation began releasing warm surface water from Shasta in mid-April to meet contractor demands.1 Reclamation seems to accept sacrificing endangered salmon again in 2021. There has been little mention of the similar fate this year for green and white sturgeon, and for spring-run and fall-run salmon.

Figure 1. Daily average flows (cubic feet per second) in Sacramento River below Shasta Reservoir in April 2014, 2015, and 2021.

Figure 2. Daily average storage (acre-feet) in Shasta Reservoir in April 2014, 2015, and 2021.

Figure 3. Daily average cold-water-pool (<52ºF) volume in Shasta Reservoir in 2014, 2015, 2021 (black line), and other selected years.

Figure 4. Daily average water temperature in Sacramento River below Shasta in April-May period of 2014, 2015, 2020, and 2021. Red line represents safe target daily average water temperature (53ºF) for winter-run salmon egg incubation.

Summer Shasta Releases Are Too High and Lower Sacramento River Summer Flows Are Too Low: Lessons Learned – #5

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Following an introductory post, this is the seventh post in a series on the lessons learned by the National Marine Fisheries Service (NMFS) from the 2013-2015 drought that devastated Sacramento River salmon populations.  This post addresses Lesson #5.

The reason for high summer releases to the Sacramento River from Shasta and Keswick reservoirs is to meet the demands of Sacramento Valley water contractors for stored water.  For example, in 2012, summer releases to the Sacramento were 15,000 cfs, with roughly 7000-8000 cfs diverted in the Sacramento Valley for water supply use (Figure 1).

The Bureau of Reclamation learned during the 2012-2015 drought that, if the previous year was wet, it must still limit water releases in summer of dry years to 12,000-13,000 cfs (Figures 2 and 3) to preserve Shasta Reservoir’s cold-water pool supply.  One consequence of this limitation as implemented has been less flow in the lower river 150-200 miles downstream.  This reduced flow has exacerbated water temperature problems in the lower river.  Reclamation has likely also reduced water deliveries in the Sacramento Valley to some degree, but the extent of any such reductions is difficult to tease out.

Because of the lessons learned, Reclamation in 2018 targeted a 53oF water temperature limit in the main spawning reach of winter-run salmon from Keswick Dam (RM 300) down to the mouth of Clear Creek (RM290) (Figure 4).  In the past, the water temperature limit had been higher (56-58oF).  In 2020, the target was once again set higher to sustain a depleted cold-water pool supply through the summer and fall. The target in the spawning reach in drought years 2014 and 2015 was 56oF, which proved ineffective at providing egg/embryo survival.

One of the actions to sustain the cold-water pool has been to limit June-July Keswick releases (Figure 5) to near 11,000 cfs in wet years (2017 and 2019).  Such action cuts into water supply deliveries and leads to reduced flows (Figure 6) and excessive water temperatures (>70 oF, Figure 7) in the lower 200 miles of river.  Without simultaneous reductions in Sacramento Valley water deliveries, reductions in Keswick releases lead to excessive water temperatures downstream of the upper 10-mile salmon spawning reach.   This violates the Central Valley Basin Plan’s temperature standard for the lower reaches of the Sacramento River (68oF).  It causes stress on rearing and migrating salmon and sturgeon, and if high enough severely retards upstream migration of adult salmon.

The obvious lesson learned is that Reclamation must limit summer Shasta cold-water storage releases and maintain sufficient lower river flows.  This will necessarily require Reclamation to more greatly restrict water supply deliveries in the Sacramento Valley than it has historically and recently.

Figure 1.

Figure 2.

Figures 1-3. Sacramento River flow (cfs) at Keswick Dam (rm 300) and Wilkins Slough (rm 120) in summer of dry years 2012, 2018, and 2020. Note: the difference between

Figure 4. September-October water temperatures in the upper Sacramento River at Clear Creek (river mile 290) from 2012-2020. Note loss of temperature control in 2014 and 2015. Note limited control in 2013, 2018, and 2020. Note meeting target 53oF 2012, 2016, 2017, and 2019

Figure 5. Flow rates below Keswick Dam in June-July 2012-2020.

Figure 6. July-September Sacramento River flow rates at Wilkins Slough (rm 120) 2015-2020. Note flows were compromised in summer 2016 and 2017 to help preserve Shasta’s cold-water pool supply and upper river water supply deliveries.

Figure 7. Water temperatures in Sacramento River at Wilkins Slough (river mile 120) May-Oct, 2015-2020

Low Spring Flows Reduce Survival of Spring-Run Salmon – Lessons 14 and 15

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Following an introductory post, this is the fifth post in a series on the lessons learned by the National Marine Fisheries Service (NMFS) from the 2013-2015 drought that devastated Sacramento River salmon populations.  This post addresses NMFS’s Lessons #14 and #15.

NMFS acknowledges that low spring flows may lead to low survival of juvenile spring-run Chinook salmon during their emigration to the sea.  NMFS also suggests that disease may also cause poor survival in dry years.

Some additional observations regarding outmigration are appropriate.  Most wild spring-run fry, fingerling, and pre-smolts emigrate in winter, although spring smolt emigration also occurs.  Another thing to consider is that while disease may be more prevalent in spring of dry years, it may be due to extended rearing in the poor habitat of the upper river in drier years (less food, warmer water, and more stress).  Increased predation by striped bass and other predators under these same habitat conditions is almost certainly another factor.  Lower flows make predators more effective because of lower turbidities, warmer and shallower water, less cover, and slower transport rates.

NMFS’s Lessons 14 and 15 did not consider lower survival of adult salmon migrating upstream in spring of drier, low flow, warmer water years.  However, this is also important.  Run counts are strongly related to water-year types, with poor runs in drier years (Figure 1).  Adults that migrate upstream in spring and over-summer in dry years face more difficult passage in spring and warmer spring and summer water temperatures.  Warmer water temperatures lead to greater stress, energy loss, and disease, poorer pre-spawn survival, and reduced reproductive success (Richter and Kolmes 2005).

An overall lesson is that low winter-spring flows lead to higher water temperatures in the lower Sacramento River migration corridor (Figures 2 and 3) and in spawning tributaries (Figure 4), which in turn reduce survival and reproductive success of spring-run salmon.

A related issue at play relates to Lesson 8 (low flows in the lower Sacramento River at the Wilkins Slough gage).  Low spring and summer flows in the lower mainstem Sacramento River flows lead to warmer spring and summer water temperatures.  This in turn leads to higher predation rates on juvenile salmon and poorer adult survival and reproduction success.  Continuing to ignore long-ago established water quality standards for water temperature and operating norms for flow is putting greater stress on all the salmon runs and on sturgeon.  Spring-run salmon are especially vulnerable because both juveniles and adults are present in the lower Sacramento River in spring.

One especially damaging case occurred in early spring 2018.  A series of storms raised flows in the lower Sacramento River by approximately 50,000 cfs, while at the same time there was only a minimum release of about 3000 cfs into the upper Sacramento River from Shasta Dam.  Substantial flows entered the lower Sacramento River from tributaries and from the outfalls of agricultural basins, including the Butte Basin at the Butte Slough Outfall gates.  Some flow even left the river via overflow weirs into the Sutter Bypass. The sudden surge of urban and agricultural basin stormwater, with high oxygen demand, sediment, and chemical loads, led to a series of fish kills of adult spring-run salmon in the lower Sacramento River at the Butte Slough Outfall (Figures 5 and 6).  It is not clear exactly why high concentrations of stormwater may have increased mortality of spring-run salmon in 2018.  What is clear is that low Shasta releases contribute to higher concentrations of stormwater in river flows at key times during their migration.

In conclusion, Reclamation should consider higher spring releases from Shasta in drier years like 2021 to (1) improve juvenile spring-run emigration survival to the Bay-Delta, and (2) improve adult spring-run survival and reproductive success.  Reclamation should also consider spring pulse flow releases from Shasta-Keswick to emulate natural unimpaired lower river spring flows and to enhance migration success.  Such pulses should be timed with lower river tributary flow pulses.  Finally, as discussed in previous posts, Reclamation’s contractors and others must reduce dry-year water diversions in spring from the mainstem Sacramento and its tributaries to further protect spring-run salmon.

Figure 1. Relationship between Mill and Deer Creek spring run salmon counts 1963-2019. Blue dots represent above-normal and wet years. Yellow dots represent below-normal and dry years. Red dots represent critical dry years. Red margin on blue dots represents a wet and above normal year for adult immigration with a critical dry year two years prior during rearing and emigration. Of special note are the sharply higher run sizes in wet years in Deer Creek, but lower run sizes in Deer Creek in drier years. This shows that production of salmon in Deer Creek suffers proportionally more than in Mill Creek in drier years. In both creeks, salmon runs suffer in years when they are emigrating and immigrating in dry conditions.

Figure 2. River flows (1000s of cfs) in the lower Sacramento River at Wilkins Slough (below the mouths of Deer and Mill Creeks) in winter-spring from 1995-2021. Note very wet conditions in 2006 and very dry conditions in 2014 and 2015.

Figure 3. Water temperatures in the lower Sacramento River at Wilkins Slough (below the mouths of Deer and Mill Creeks) in winter-spring from 2013-2021 (only data available). Note the extraordinarily warm water (near or above 70ºF) in early spring of drier 2014, 2015, 2018, and 2020. State standard is 68ºF. Migrating adult salmon suffer stress and mortality at water temperatures above 60ºF.

Figure 4. River flow and water temperature in Deer Creek 2011-2921. Wet year spring in 2011, 2017 and 2019 shown in blue highlight: other spring conditions shown in yellow highlight. Dry years include 2013-2015 and 2021. The remainder are normal or average year types. Note lower water temperatures in wetter years, with highly stressful temperatures (>68ºF, 20ºC) delayed further into spring than during drier years.

Figure 5. Dead adult spring-run salmon floating at the mouth of Butte Slough Outfall in the Sacramento River in March 2018. Fish likely died from severe stress from low oxygen and heavy suspended sediment and chemical load after being attracted to stormwater flow from outfall gates.

Figure 6. Dead adult spring-run salmon floating at the mouth of Butte Slough Outfall in the Sacramento River in March 2018. Fish likely died from severe stress from low oxygen and heavy suspended sediment and chemical load after being attracted to stormwater flow from outfall gates.
Source: https://youtu.be/t5oB_hWcrzU