Wednesday, May 20, 2026

Are You Ready? We Break Down the Salmonella Control Plan for Laying Hens for 2026.

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Table of Contents

National Control Programme for Salmonella in Laying Hens 2025–2027 — 2026 Version

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Background

Surveillance and control of Salmonella in poultry farming in Spain has been carried out since 1993, in accordance with Directive 92/117/EEC, repealed by European Directive 2003/99/EC on measures for monitoring zoonoses and zoonotic agents in animals and products of animal origin, with a view to preventing outbreaks of food-borne infections and intoxications.

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During the period from October 2004 to September 2005, a baseline study was conducted on the prevalence of Salmonella in flocks of Gallus gallus laying hens at Community level. The monitoring and data collection in Gallus gallus laying hen flocks was carried out following the Community-level guidelines set out in Commission Decision 2004/665/EC of 22 September 2004.
The flock-level prevalence of Enteritidis and Typhimurium serotypes found in these initial studies was 51.5%, and 73.2% when considering Salmonella spp., according to the data obtained from the study.


Starting from these high levels, recorded more than 20 years ago, the EU set out to substantially reduce these figures and has since 2006 maintained an annual study, country by country, measuring the prevalence level of Salmonella Enteritidis, S. Typhimurium and S. Typhimurium monophasic variant. The objective was, and remains, annual monitoring and achieving prevalence levels below 2%.

The evolution of prevalence against the Salmonella serotypes subject to control in Gallus gallus laying hen flocks is presented in the graph at the foot of this article, with S. Enteritidis being the most prevalent serotype among those subject to control under the PNCS (National Salmonella Control Plans).
In 2024, the prevalence of adult flocks positive for the serotypes subject to control (combined data) was 1.47%, thus remaining within the EU reduction target.

Below we present a summary of the recently published 2026 update of the NATIONAL CONTROL PROGRAMME FOR CERTAIN Salmonella SEROTYPES IN LAYING HENS OF THE SPECIES Gallus gallus for the period 2025–2027

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Practical summary of the official programme published by the Spanish Ministry of Agriculture, Fisheries and Food (MAPA).

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This document provides an operational summary of the obligations, procedures and deadlines that farmers, farm veterinarians, authorised laboratories and official veterinary services need to be aware of in order to comply with the National Salmonella Control Programme (PNCS) for laying hens of the species Gallus gallus.

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1. Programme objective

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  • Target serotypes: Salmonella Enteritidis (SE) and Salmonella Typhimurium (ST), including its monophasic variant.
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  • Quantitative target: reduce to 2% or less the maximum percentage of positive flocks in adult laying hens.
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  • 2024 result: prevalence of 1.47% (within the EU target).
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  • Territorial scope: the entire territory of the Kingdom of Spain.
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2. Who does it apply to?

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Type of holdingIncluded in the PNCS?Notes
Adult laying hens and pullet rearing — eggs for commercial saleYesFull programme of own-checks and official controls
Direct supply of small quantities to the final consumer or local shopsYes (reduced)Minimum 1 own-check per year
Egg production for self-consumption (private domestic use)NoExcluded from the programme
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Prerequisite: holdings must be authorised and registered by the competent authority.

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3. Flock identification

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Each flock is identified with a unique code made up of:

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REGA + HOUSE (capital letter) + DATE OF BIRD PLACEMENT (mmyyyy)

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  • The house letter must be displayed on the entry door.
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  • The placement date is taken from the flock record or from the holding’s registers.
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“If you produce free-range or barn eggs, remember: two pairs of boot covers, 100 steps each. Lazy sampling is costly.”

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4. Definition of a positive flock

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A flock is considered positive when:

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  • SE or ST (including monophasic variant) is detected in one or more samples, even if it appears only in the dust sample.
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  • Antimicrobials or bacterial growth inhibitors are detected in the flock.
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Counting rule: a positive flock is counted only once throughout its entire production period, regardless of the number of detections or of who collected the sample.

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5. Own-check schedule (mandatory for the farmer)

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PhaseSampling pointSample type
Day-old chicksUpon delivery to the holdingBox liners (10 boxes), or viscera from 60 chicks, or meconium from 250 chicks
Pullet rearing2 weeks before transfer to the laying unitFresh faeces (min. 10 points) or 2 pairs of boot swabs (100 steps/pair)
Laying phaseEvery 15 weeks, first sampling at 24±2 weeksAccording to housing system (see table below)
C&D verification (cleaning and disinfection)After each depopulation and cleaning/disinfectionMin. 2 swabs of ≥ 900 cm² each
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Sample type during the laying phase by housing system

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SystemOwn-check samples
Cages2 × 150 g of faeces from belts/scrapers, or from 60 points of the pit if no belts are present. If insufficient material on belts: 4+ moistened swabs of ≥ 900 cm²
Floor / Free-range / Organic2 pairs of absorbent boot swabs (min. 100 steps/pair), covering all areas of the house
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Boot swab requirements:

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  • Pre-moisten with diluent (0.8% NaCl + 0.1% peptone in sterile deionised water, or sterile water).
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  • Place over overshoes.
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  • Avoid contact with disinfectants in footdips.
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  • The 2 pairs may be pooled into a single sample.
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6. Official controls — What the official veterinarian will do on your farm

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6.1. Frequency and scope

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  • Minimum 1 flock per holding per year (in holdings with more than 1,000 birds).
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  • Preferably at the end of the production period, within the 9 weeks prior to flock depopulation.
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  • An official control replaces the own-check for the same period.
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6.2. Situations triggering an additional mandatory official control

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  • At 24±2 weeks if the previous flock in that house tested positive.
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  • Suspected infection through epidemiological investigation of a foodborne illness outbreak.
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  • Detection of a programme serotype in any flock on the holding → control in all other flocks.
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  • At any time deemed necessary by the competent authority.
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6.3. Samples in official controls

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SystemSamples
Cages3 samples (2+1) of faeces from belts/scrapers/pits (150–200 g each)
Floor / Free-range / Organic3 pairs (2+1) of boot swabs (100 steps/pair). The CA may replace 1 pair with a dust sample (≥ 100 g)
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A dust sample shall always be taken when:

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  • Hygiene, health or biosecurity conditions are inadequate.
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  • The holding has a history of positive results.
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  • Deficiencies have been detected in own-checks or own-checks have not been carried out.
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7. Notification of results — Key deadlines

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ActionMaximum deadlineResponsible party
Communicate positive result (confirmed or suspected) to the CA24 hours from becoming knownLaboratory + owner
Send isolate for serotyping to another laboratory24 hours from isolationIsolating laboratory
Commence serotyping after receipt of isolate24 hoursSerotyping laboratory
Issue serotyping report24 hours from obtaining the resultSerotyping laboratory
Enter own-check results into the MAPA application1 month from obtaining the resultAuthorised laboratory
Send samples to the laboratory24 hours from collection (otherwise refrigerate)Person responsible for sampling
Commence laboratory examination after receipt48 hours (and within 96 hours of sampling)
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Important: results must be recorded in the “Autocontroles en explotaciones avícolas” application of the MAPA. Samples not recorded in the application are not valid within the PNCS.

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8. What happens if a flock tests positive?

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8.A. Positive for Salmonella spp. (any serotype) — Immediate measures

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  • The sale of eggs for fresh consumption is prohibited until it is ruled out that the serotype is subject to control.
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  • The farmer and public health services are notified.
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  • Urgent serotyping is carried out.
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8.B. Positive for SE or ST (including monophasic) — Full measures

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  1. Rigorous epidemiological investigation to identify the source of infection (feed, water, origin of pullets, etc.).
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  3. Flock standstill: prohibition of bird movements, except with authorisation for slaughter or destruction with an official health document.
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  5. Eggs → category B: may only be destined for egg products (heat treatment to destroy Salmonella). They may not go to packing centres without supervision by the CA.
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  7. Enhanced biosecurity controls on all flocks on the holding.
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  9. After depopulation: thorough cleaning + disinfection + insect control + rodent control.
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  11. Environmental sampling to verify the effectiveness of C+D (2 cloths of ≥ 900 cm²).
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  13. Minimum downtime: 12 days (reducible to 7 if analyses demonstrate effectiveness).
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  15. Restocking only with a negative result from environmental sampling and correction of biosecurity deficiencies.
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  17. Official control on all other flocks on the holding.
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  19. All measures are maintained throughout the entire production cycle of the positive flock.
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  21. In flocks still in production sending eggs for egg products, no further self-monitoring samples are taken (they are already considered positive).
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8.C. Positive for a serotype NOT subject to control

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  • Epidemiological investigation.
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  • Enhanced biosecurity controls.
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  • If recurrent positive results occur, the CA of the establishment of origin of the pullets is notified.
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“The downtime is non-negotiable: 12 days post-cleaning or 7 days if you present negative surface analyses.”

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9. Vaccination — Practical obligations

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AspectRequirement
Is it mandatory?Yes, at least during the rearing phase, as a minimum against SE
Are there exceptions?Only if authorised by the CA: holdings with adequate biosecurity, a self-monitoring plan in place and negative results for SE/ST during the last 12 months (self-monitoring) and in the last official control
Intra-Community tradeVaccination always mandatory if eggs are exported to other EU countries
Permitted vaccinesOnly with authorisation from the AEMPS or the European Commission. They must allow differentiation between the vaccine strain and the field strain
Live vaccines during the laying phaseProhibited, unless specifically authorised for this use
Record-keepingEnter in the treatment register + record in the Ministry’s computer application
CertificationThe owner of the rearing farm must certify the vaccination of each flock to the destination farm
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10. Biosecurity — Verification protocol (summary of the official survey)

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Biosecurity measures are verified at least once a year, preferably together with the annual official control. The survey is scored and the results are communicated to the operator.

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14 blocks assessed:

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BlockMax. scoreKey elements assessed
1. Access control9-12Fencing, vehicle disinfection, visitor log, footbaths, wildlife access, confinement
2. Facility maintenance5Maintenance plan, vegetation, building integrity, screens on openings
3. Drinking water2Source (mains/other), chlorination, covered and protected tanks
4. Manure managementDocumented plan for handling, storage and removal
5. Carcasses and ABP4Disposal system, closed containers, collection from outside the fenced perimeter
6. Personnel access to houses9Footbaths, changing rooms, clean/dirty zone separation, dedicated clothing
7. Pullet supply3Loading/unloading from outside, health documents, Salmonella and vaccination certificates
8. Feed control13Authorised suppliers, storage, analysis certificates, heat treatment, additives
9. Cleaning, disinfection and pest control (CDC)12Documented programme, efficacy analysis, operator training, downtime of 12 days (or 7 with demonstrated efficacy)
10. Rodent and animal control11-13Documented rodent control plan, authorised company, absence of domestic animals in the production area
11. Veterinary medicines2Up-to-date register, separate storage, waste management
12. Veterinary supervision1Responsible veterinarian with recorded periodic visits
13. Management practices and training6Code of good practice, all-in all-out, depopulation every 2 years (multi-age), training every 5 years
14. Self-monitoringCompliance with the sampling schedule during rearing and laying
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Exclusionary requirements: if not met, the block score is automatically 0. These include aspects such as fencing, wildlife access, protected water tanks, a CDC programme, a responsible veterinarian, all-in all-out system, among others.

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In the event of deficiencies: the CA draws up a report with the operator listing the deficiencies and the deadline for correction. Measures may range from a standstill on the holding to the loss of the health authorisation.

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“In rearing, vaccination against S. Enteritidis is not an option, it is a health obligation.”

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11. Documentation that the poultry farmer must have available

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  • Register of the nature and origin of feeds.
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  • Register of diseases that may affect product safety.
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  • Up-to-date visitor log (persons and vehicles).
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  • Register of medicinal treatments (including vaccines).
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  • All Salmonella analysis results for the flock (including those from the hatchery and rearing unit of origin) — to be kept for a minimum of 3 years.
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  • Flock record with entries and exits — to be kept for a minimum of 3 years after disposal.
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  • C+D, rodent control and insect control protocols and records.
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  • C+D efficacy verification analyses.
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  • Certification from the pullet supplier regarding the health status of breeders, vaccinations and self-monitoring during rearing.
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12. Laboratories — Requirements and obligations

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  • National Reference Laboratory (NRL): Laboratorio Central de Veterinaria, Algete (Madrid).
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  • All laboratories (official control and self-monitoring) must be accredited to EN/ISO 17025 for the detection of Salmonella in all matrices covered by the PNCS.
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  • They must participate in the proficiency testing schemes of the NRL.
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  • If a laboratory acts simultaneously as an official and a self-monitoring laboratory, it must ensure separation of activities and notify the CA.
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  • They must reject samples that do not meet the programme requirements.
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  • Official control laboratories send all isolated strains to the NRL. Self-monitoring laboratories send those requested by the NRL.
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13. Detection method and serotyping

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  • Reference standard: EN/ISO 6579-1 (Amd1:2020) — MSRV semi-solid medium as the sole selective enrichment medium.
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  • MSRV incubation: 41.5 ± 1 °C for 2 × (24±3) hours.
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  • Serotyping: minimum 1 strain per positive sample, according to the Kaufmann-White-Le Minor scheme.
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  • Differentiation of the vaccine strain will be carried out and, where necessary, confirmation of monophasic ST by PCR.
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  • Alternative methods: permitted if validated according to EN ISO 16140 and registered with the MAPA.
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  • Strain preservation: minimum 2 years, using standard culture collection methods.
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“Spain’s target for 2026 remains firm:
to keep the prevalence of Salmonella in laying hens below 2%.”

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14. Positive flocks and the slaughterhouse — Logistical slaughter

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  • The operator must include Salmonella results in the Food Chain Information (FCI).
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  • Flocks positive for SE/ST: movement only with an official health document.
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  • At the slaughterhouse: logistical slaughter (last in the daily order), followed by C+D.
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  • The slaughterhouse must include in its sampling plans carcasses from positive or unknown-status flocks.
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    15. Compensation

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    • If the CA orders compulsory slaughter, the owner is entitled to compensation (provided they have complied with the regulations).
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    • Rates regulated by RD 823/2010.
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    • The age of the birds for compensation purposes is that at the time the slaughter is ordered.
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    16. Verification of C+D after depopulation of a positive flock — Step by step

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    1. Complete depopulation of the house (total removal of litter and droppings).
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    3. Cleaning + disinfection + insect control + rodent control with authorised products.
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    5. Allow adequate time after disinfection.
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    7. Environmental sampling: minimum 2 cloths of ≥ 900 cm² (per face), passed over floors, walls, feeders, drinkers, fans, beams, pipes, egg belts, manure belts, scrapers and hard-to-clean points. Moisten beforehand with diluent.
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    9. Send to an authorised laboratory (methods identical to those for the rest of the PNCS).
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    11. Record results in the MAPA self-monitoring application (within the outgoing flock’s samples).
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    13. Sanitary downtime: minimum 12 days after C+D (reducible to 7 if negative results confirming efficacy are available).
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    15. Restocking only with a negative result and correction of biosecurity deficiencies. Under official supervision.
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    17. If the result is positive for Salmonella spp.: repeat C+D until a satisfactory result is obtained.
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    17. Feed controls

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    • Feed operators must apply HACCP (Regulation EC 183/2005) to minimise contamination by Salmonella.
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    • More than 3,000 official inspections per year are carried out at animal feed establishments and more than 1,000 official microbiological samples are taken.
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    • If Salmonella is detected in plant-based products (with no established legal limit), it is serotyped. If SE, ST, S. Infantis, S. Virchow or S. Hadar is identified: notification via the Alert Network.
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    • The feed manufacturer or supplier must ensure that Salmonella control is included in their HACCP system and make the analyses available to the holding.
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    “The biosecurity survey is no longer just a piece of paper: it is recorded, scored and conditions your activity.”

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    18. Self-monitoring control plan — How is the reliability of self-monitoring checks verified?

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    • The Official Veterinary Services carry out quality control of self-monitoring in 10% of holdings in each autonomous community (minimum 1 if there are fewer than 10).
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    • Selection criteria (by risk): negative self-monitoring but positive official control; positive public health notification; positive C+D results; or random selection.
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    • The control includes: a verification survey + on-site observation of self-monitoring sampling by the official veterinarian.
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    • The following are verified: correct use of peptone, representativeness (steps, surface area), preservation and dispatch deadlines.
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    • If the CA deems it appropriate, sampling is carried out in duplicate (one official sample, one self-monitoring sample).
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    • Laboratory inspection: all self-monitoring laboratories in each autonomous community must be inspected within a two-year period.
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    19. Historical prevalence data (programme evolution)

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    YearSE+ST Prevalence (%)
    2008 (baseline)15.60
    20097.21
    20105.92
    20112.80
    20122.20
    20131.87
    20141.18
    20150.72
    20161.59
    20171.43
    20181.57
    20192.34
    20201.40
    20212.63
    20221.62
    20231.74
    20241.47
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    In 2024, the most frequently detected serotype among those identified was “Other” (49.78%), followed by S. Enteritidis (15.86%), S. Infantis (11.45%) and S. Corvallis (5.29%). S. Typhimurium and its monophasic variant together accounted for approximately 3%.

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    20. Main reference legislation

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    • Regulation (EC) 2160/2003: control of Salmonella and other zoonotic agents in primary production.
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    • Regulation (EU) 517/2011: testing requirements for laying hens.
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    • Regulation (EC) 1177/2006: use of vaccines and antimicrobials in control programmes.
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    • Regulation (EC) 183/2005: feed hygiene.
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    • Royal Decree 637/2021: basic rules for the organisation of poultry farms (Spain).
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    • Law 8/2003: on Animal Health (Spain).
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    • Royal Decree 823/2010: compensation rates for compulsory slaughter.
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    • EN/ISO 6579-1 (Amd1:2020): method for the detection of Salmonella.
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    • EN/ISO 17025: laboratory accreditation.

      List of Salmonella vaccines authorised in Spain (updated June 2025)
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    Disclaimer / Important notice:
    This summary has been prepared by NeXusAvicultura.com based on the official document “National Programme for the Control of Certain Salmonella Serovars in Laying Hens of the Species Gallus gallus 2025-2027, 2026 Version, published by the General Sub-Directorate for Animal Health, Livestock Hygiene and Traceability of the Ministry of Agriculture, Fisheries and Food (MAPA).
    It is for information purposes only and does not replace the legal text, which can be consulted in full (50 pages) on the MAPA website.

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    For more information:
    -. Salmonella in poultry farming
    -. Basic legislation and general information on Salmonella Control Programmes
    -. MAPA’s main Salmonella Control in Poultry page

    -. Summary of the 2026 Salmonella Control Programme for fattening and breeding TURKEYS. (25 March 2026)
    -. Summary of the 2026 Salmonella Control Programme for BREEDER hens. (17 March 2026)
    -. Summary of the 2026 Salmonella Control Programme for BROILER chickens. (23 Feb 2026)
    -. Summary of the 2026 Salmonella Control Programme for LAYING HENS. (17 Feb 2026)

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