Gene expression profiling and expression analysis of freshwater shrimp (Neocaridina denticulata denticulata) using expressed sequence tags and short-term exposure to copper

What was studied

Study shape: A baseline whole-body cDNA library from ten non-exposed wild shrimp produced 1,247 high-quality expressed sequence tags and 603 unique sequences. A separate short-term copper experiment used three shrimp per treatment, a time series at 0, 1, 3, 6, 9 and 24 hours with the copper concentration unstated, and a 24-hour nominal dose series whose figure labels 0, 1, 2, 5, 10 and 100 micrograms per litre. Pooled whole-body RNA was assayed by real-time RT-PCR for 14 selected transcripts using beta-actin as the sole reference gene.

Experimental unit: The report does not identify the exposure container, independent vessel replication or random allocation. Three shrimp are described per treatment and their total RNA was pooled before cDNA synthesis; the triplicate experiments and figure N of 3 therefore do not clearly identify independent biological replicates.

Endpoints: baseline expressed sequence tags and sequence annotation, relative whole-body mRNA abundance for 14 selected targets.

Claim boundary

What it can support: Under the reported short-term nominal copper protocol, all 14 selected transcripts varied in at least part of the time or concentration series, and nine were reported to increase by more than two-fold at one or more observations from 1 to 24 hours. This supports a candidate short-term pooled whole-body transcriptional response, not a validated field biomarker.

What it cannot support: The copper material, concentration used for the time series, exposure vessels, independent vessel replication, allocation, acclimation, feeding, water renewal and measured water concentrations were not reported. The prose loses the dose unit while the figure labels micrograms per litre, and the stated 28 PSU salinity conflicts with the freshwater lake description. Pooling makes the biological denominator unclear, beta-actin stability and PCR efficiencies were not reported, and repeated target-by-time and target-by-dose tests had no reported multiplicity model. Transcript changes do not establish protein abundance, toxicity, survival, molting impairment, immune competence, chronic harm, a safe concentration, diagnosis or validated biomarker panel.

Publication status audit

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Metadata snapshot reviewed 2026-08-12. Inspect the method, unmatched queue and limitations.

Correction impact

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Editorial review required (5)

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• Any copper kills shrimp or copper is safe Curated claim check
  The exact claim trace uses this record as direct support: Measures copper-associated transcript responses without establishing a home safe or lethal product rule.
• chemical-safety decision card Tank-side decision card
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• A biological response is not automatically a care threshold Curated evidence comparison
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• chemical-safety practical guide Practical guide
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• round1-synthesis-chemical Curated first-round reviewer assignment
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Generated from governing registry (13)

This surface derives from a governing registry and should update with it, but release tests must still prove parity and routing.

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• copper teaching card Generated claim teaching card
  The teaching card is generated from the curated claim wording.
• copper portable reply Generated claim text
  The portable reply is generated from the curated claim wording.
• chemical-safety portable decision card Generated decision-card text
  The portable text derives from the curated decision-card registry and must preserve every card section and both permanent links.
• chemical-safety complete visual decision card Generated decision-card visual
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• Gene expression profiling and expression analysis of freshwater shrimp (Neocaridina denticulata denticulata) using expressed sequence tags and short-term exposure to copper Canonical evidence page
  The canonical evidence page derives from the current evidence registry record.
• chemical-safety evidence dossier Generated guide dossier
  The dossier derives its linked evidence set from the record care path.
• copper review item Generated independent-review item
  The independent-review item derives from the exact claim trace and publication-status registry.
• Machine-readable knowledge export Machine-readable knowledge export
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• Research map record Research map
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Historical record needs follow-up decision (1)

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• Three copper transcript papers still do not create a copper test Historical research change
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