Long non-coding RNA (lncRNA) has been extensively studied in many livestock. However, compared with other livestock breeds, there is less research regarding donkey lncRNA function. It has been reported that lncRNA plays an important role in the timing control of development, aging, and death of livestock. Therefore, the study of donkey skeletal muscle lncRNA is of great significance for exploring donkey meat production performance. In this study, RNA-Seq was used to perform high-throughput sequencing of skeletal muscle (longissimus dorsi and gluteus) of two Dezhou donkey strains (SanFen and WuTou). The differentially expressed lncRNAs were screened between different strains and tissues. Then candidate genes for conjoint analysis were screened based on Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis. Finally, the accuracy of the sequencing data was verified by real-time quantitative polymerase chain reaction (RT-qPCR). Herein, we identified 3869 novel lncRNAs and 73 differentially expressed lncRNAs. Through the comparison between groups, the specific expression of lncRNAs were found in different strains and muscle tissues. Importantly, we constructed the lncRNA-miRNA-mRNA interaction network and found three important candidate lncRNAs (MSTRG.9787.1, MSTRG.3144.1, and MSTRG.9886.1) and four candidate genes (ACTN1, CDON, FMOD, and BMPR1B). Analysis of the KEGG pathway indicates that the TGF-β signaling pathway plays a pivotal role in the growth and development of skeletal muscle in Dezhou donkey strains.

To meet human needs, domestic pigeons (Columba livia) with various phenotypes have been bred to provide genetic material for our research on artificial selection and local environmental adaptation. Seven pigeon breeds were resequenced and can be divided into commercial varieties (Euro‐pigeon, Shiqi, Shen King, Taishen, and Silver King), ornamental varieties (High Fliers), and local varieties (Tarim pigeon). Phylogenetic analysis based on population resequencing showed that one group contained local breeds and ornamental pigeons from China, whereas all commercial varieties were clustered together. It is revealed that the traditional Chinese ornamental pigeon is a branch of Tarim pigeon. Runs of homozygosity (ROH) and linkage disequilibrium (LD) analyses revealed significant differences in the genetic diversity of the three types of pigeons. Genome sweep analysis revealed that the selected genes of commercial breeds were related to body size, reproduction, and plumage color. The genomic imprinting genes left by the ornamental pigeon breeds were mostly related to special human facial features and muscular dystrophy. The Tarim pigeon has evolved genes related to chemical ion transport, photoreceptors, oxidative stress, organ development, and olfaction in order to adapt to local environmental stress. This research provides a molecular basis for pigeon genetic resource evaluation and genetic improvement and suggests that the understanding of adaptive evolution should integrate the effects of various natural environmental characteristics.

In the pigeon industry, treating and preventing diarrhea is vital because it is a serious health problem for pigeons. This study investigated the incidence of diarrhea in 3 pigeon farms in Shanghai, and analyzed the microflora through 16S rDNA high-throughput sequencing. Four strains of Escherichia coli (E. coli) isolated from pigeon diarrhea feces were administered via gavage to healthy pigeons, with each pigeon receiving 2 × 10⁸ CFU. Pigeons that developed diarrhea after E. coli challenge were treated with 3 g of Lactobacillus salivarius SNK-6 (L. salivarius SNK-6) health sand (1.6 × 10⁷ CFU/g). Then, a mass feeding experiment expanded to 688 pairs of pigeons with 3 replicates, each receiving 3 g of health sand containing L. salivarius SNK-6 (1.6 × 10⁷ CFU/g) every 2 wk, and fecal status monitored and recorded. The study found that the relative abundance of the Lactobacillus genus and L. salivarius in feces from pigeons with diarrhea was significantly lower than in normal pigeon feces (P < 0.05). In contrast, E. coli showed a higher abundance and diversity in feces from pigeons with diarrhea than in normal feces (P < 0.05). Three out of the 4 isolated E. coli strains caused pigeon diarrhea, resulting in a significant reduction in microbial diversity in fecal samples (P < 0.05). Both the small group attack experiment and the mass-fed additive experiment in pigeon farms demonstrated that feeding L. salivarius SNK-6 effectively cured and prevented diarrhea. Pigeons fed with L. salivarius SNK-6 exhibited no diarrhea, while the control group had a 10% diarrhea rate. In summary, a deficiency of Lactobacillus or a high abundance of E. coli in the intestine could easily cause pigeon diarrhea. Feeding L. salivarius SNK-6 could treat pigeon diarrhea, and continuous supplementation could maintain stable preventive effects.

China has the largest population of pigeons globally, particularly for commercial meat production. Due to insufficient emphasis on bloodline preservation, there is a significant occurrence of breed hybridization, which presents challenges to the differentiation and identification of various pigeon breeds. In this study, a single-nucleotide polymorphism chip was developed to elucidate genomic relationships and genetic diversity among 10 pigeon breeds, encompassing meat, racing, and ornamental varieties. Principal component analysis revealed that this resource population could be classified into three major clusters: homing and Tarim pigeons; the Dianzi (DZ) and Xinjiang Roller (XR) varieties; and commercial meat pigeon breeds, including the Euro-pigeon (EP), Danish King (DK), Silver King (SK), Yellow Carneau (YC), Red Carneau (RC), and Taishen (TS) varieties. Phylogenetic tree analysis indicated that the HP, TR, DZ, and XR varieties clustered into a large group. Of these, the HP and TR groups and the DZ and XR group were closely genetically related. Other meat pigeon varieties clustered into a large group. The genetic relationship between the YC and RC pigeons was intertwined, suggesting that although there were differences in feather color, the genetic backgrounds are similar. The phylogenetic tree results also demonstrated that the DK and SK pigeons had a considerable genetic distance, indicating that although the feather color was similar, the birds belong to two distinct genetic groups. The Pigeon 5 K liquid chip can effectively discriminate among different pigeon populations and provides a method for the identification and evaluation of pigeon germplasm resources, especially for pure breed identification and exploration of new resources.

The aims of this study were to assess the correlation of breast muscle thickness (BMT) with the breast muscle weight (BMW), body weight (BW), breast width, and breast depth (BD) of meat pigeons, and to explore the feasibility of ultrasonic nondestructive testing (UNDT) for non-invasive measurements of BMT. It has been proven that using ultrasonic nondestructive testing specifically for evaluating the pectoral musculature yield in other poultry species such as Peking ducks and Yangzhou geese is feasible. The BMT of Carneau and Silver King pigeons (n = 103 each; age, 28 days) was measured at two points by UNDT. The correlation between the BMT at two points and BMW was analyzed. The results demonstrated that the correlation coefficients between BMT at point A and BMW were 0.907 and 0.897 in Carneau and Silver King pigeons, respectively, with significant regression relationships (p < 0.01). Variety and sex had little effect on BMT measurements. Six optimal univariate linear regression equations were established. The regression relationship was very significant, as determined by the F-test (p < 0.01), indicating an actual regression relationship between the variables of each equation and that UNDT can be applied for the breeding of meat pigeons. This represents the first application of ultrasonic nondestructive testing specifically for evaluating pectoral musculature yield in pigeons intended for meat production.