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About 35% of all broiler flocks in the United States receive an anticoccidial vaccine, but it is not possible to easily differentiate Eimeria vaccine strains from Eimeria field isolates. Being able to do that would allow using vaccines in a more targeted way. The objective of this study was to collect Eimeria maxima isolates from broiler flocks that received anticoccidial feed additives and flocks that had been vaccinated against coccidia and then test them with a multilocus sequencing typing (MLST) scheme developed for this study. Fecal samples were obtained from commercial broiler flocks in Alabama and Tennessee. Oocyst counts in samples tended to be lower in flocks receiving anticoccidial feed additives and higher in vaccinated flocks. Selected samples were screened for presence of E. maxima by quantitative PCR, and Eimeria spp. composition was investigated by next-generation amplicon sequencing (NGAS) in 37 E. maxima positive samples. Other detected Eimeria spp. besides E. maxima were Eimeria acervulina in 35 samples, Eimeria praecox in 23 samples, Eimeria mitis or Eimeria mivati in 17 samples, and Eimeria necatrix or Eimeria tenella in 10 samples. Six partial E. maxima genes (dnaJ domain containing protein, 70-kDa heat shock protein, prolyl endopeptidase, regulator of chromosome condensation domain containing protein, serine carboxypeptidase, and vacuolar proton-translocating ATPase subunit) of 46 samples were sequenced. The MLST scheme was able to differentiate two vaccines from each other. Three of 17 samples from vaccinated flocks differed from the vaccine used in the flock, while 16 of 29 samples from unvaccinated flocks differed from the vaccine. However, there was also a large number of low-quality, ambiguous chromatograms and negative PCRs for the selected genes. If and when more advanced, possibly next-generation sequencing-based methods will be developed, the genes should be considered as targets. Tipificación por secuenciación multilocus de Eimeria maxima en parvadas comerciales de pollos de engorde. Alrededor del 35% de todas las parvadas de pollos de engorde en los Estados Unidos recibe una vacuna anticoccidial, pero no es posible diferenciar fácilmente las cepas vacunales de Eimeria de los aislados de campo de Eimeria. La posibilidad de diferenciar entre cepas vacunales y de campo permitiría usar vacunas de una manera más específica. El objetivo de este estudio fue recolectar aislamientos de Eimeria maxima de parvadas de pollos de engorde que recibieron aditivos alimenticios anticoccidiales y parvadas que habían sido vacunadas contra coccidia y luego analizarlos con un esquema de tipificación por secuenciación multilocus (MLST) desarrollado para este estudio. Las muestras fecales se obtuvieron de parvadas comerciales de pollos de engorde en Alabama y Tennessee. Los conteos de ooquistes en las muestras tendieron a ser más bajos en las parvadas que recibieron aditivos alimenticios anticoccidiales y más altos en las parvadas vacunadas. Las muestras seleccionadas se examinaron para determinar la presencia de E. maxima mediante PCR cualitativa, y Eimeria spp. la composición se investigó mediante secuenciación de amplicones de próxima generación (NGAS) en 37 muestras positivas de E. maxima. Además de E. máxima, otras Eimeria spp detectadas, fueron Eimeria acervulina en 35 muestras, Eimeria praecox en 23 muestras, Eimeria mitis o Eimeria mivati en 17 muestras, y Eimeria necatrix o Eimeria tenella en 10 muestras. Se secuenciaron seis genes parciales de E. maxima (proteína que contiene al dominio dnaJ, proteína de choque térmico de 70 kDa, prolil endopeptidasa, proteína que contiene al regulador del dominio de condensación cromosómica, serina carboxipeptidasa y la subunidad de ATPasa vacuolar translocadora de protones) de 46 muestras. El esquema MLST pudo diferenciar dos vacunas entre sí. Tres de 17 muestras de parvadas vacunadas diferían de la vacuna utilizada en la parvada, mientras que 16 de 29 muestras de parvadas no vacunadas diferían de la vacuna. Sin embargo, también hubo una gran cantidad de cromatogramas ambiguos y de baja calidad y PCR negativos para los genes seleccionados. En Cuando se desarrollen métodos más avanzados, posiblemente de próxima generación, basados en la secuenciación, estos genes deben considerarse como objetivos. [ABSTRACT FROM AUTHOR]

The article discusses observational study for incidence of clostridium perfringens toxins NetB and TpeL in broiler farms of Alabama. Topics include genotype of toxins using polymerase chain reaction (PCR), screening of isolates for lethal toxin genes such as; enterotoxin gene and clostridium perfringens alpha (α) (cpa) encoding genes and identification of low level of C type isolates.

Simple Summary: As biosecurity is generally low in backyard chicken flocks, infections with various pathogens are common. This puts other poultry nearby, including commercial flocks, at risk. Some chicken pathogens can also infect humans and cause disease. In this study, backyard poultry flocks were tested for parasites. Eighty-four fecal samples, 82 from chickens and two from turkeys, from 64 backyard flocks throughout the state of Alabama were collected in the summers of 2017 and 2018. The most frequently observed parasites were coccidia, unicellular parasites capable of causing diarrhea. Eggs of various roundworms were observed in 20.3–26.6% of the flocks. These parasites were usually present in low numbers only. Other detected parasites were the flagellates Histomonas meleagridis and Tetratrichomonas gallinarum in 4.7% and 18.8% of flocks. Both can cause severe disease in poultry. Detected parasites that can cause disease in humans were Cryptosporidium spp. in 18.8% of the flocks and Blastocystis spp. in 87.5% of the flocks. The results will help to provide information that can be used to design outreach programs to improve the health and wellbeing of birds in backyard flocks. Keeping chickens as backyard pets has become increasingly popular in the United States in recent years. However, biosecurity is generally low in backyard flocks. As a consequence, they can serve as reservoirs for various pathogens that pose a risk for commercial poultry or human health. Eighty-four fecal samples, 82 from chickens and two from turkeys, from 64 backyard flocks throughout the state of Alabama were collected in the summers of 2017 and 2018. Coccidia oocysts were seen in 64.1% of flocks with oocyst counts in most samples below 10,000 oocysts per gram. Eggs of Ascaridia spp. or Heterakis gallinarum were observed in 20.3% of the flocks, and eggs of Capillaria spp. in 26.6% of the flocks. Egg counts were low, rarely exceeding 1000 eggs per gram. DNA extracted directly from fecal samples was investigated by PCR for other relevant parasites. The results showed that 4.7% of flocks were positive for Histomonas meleagridis, 18.8% of flocks for Tetratrichomonas gallinarum, 18.8% of flocks for Cryptosporidium spp. and 87.5% of flocks for Blastocystis spp. The results will help to provide information that can be used to design outreach programs to improve health and wellbeing of birds in backyard flocks. [ABSTRACT FROM AUTHOR]