Habitat micromodification poses significant challenges to wildlife, necessitating adaptive responses. This study aimed to investigate how such habitat alterations affect the dietary intake and gut microbiota of Père David’s deer (Elaphurus davidianus). A total of 25 fresh fecal samples were collected from Père David’s deer through non-invasive sampling in Tianjin Qilihai Wetland across three distinct phases of habitat micromodification: pre-change (N = 10), under-change (N = 8), and post-change (N = 7). Dietary composition was analyzed via microscopic identification of plant residues, and gut microbiota structure was characterized using 16S rRNA high-throughput sequencing. Results showed that the diet shifted significantly across phases, with 33 plant species from 20 families identified. Meanwhile, the core gut microbiota remained structurally stable. The phyla Firmicutes and Bacteroidota consistently dominated, despite fluctuations in some specific bacterial genera. Functional prediction indicated minimal change in core microbial metabolic pathways. Correlation analysis suggested that key dietary plants were linked to the abundance of specific, functionally relevant microbial taxa. In conclusion, this study demonstrates that the gut microbiota of Père David’s deer exhibits marked resilience to dietary shifts induced by habitat micromodification. This stability is underpinned by functional redundancy within the microbial community and the consistent intake of fibrous plants, representing a key adaptive mechanism. Our findings highlight that integrating non-invasive monitoring of diet and microbiota can effectively assess the adaptive capacity of endangered ungulates to managed habitat change, thereby informing more resilient conservation strategies.

The gut microbiota plays a crucial role in the health and well-being of primates. This study applied 16S rRNA high-throughput sequencing technology, aiming to investigate the differences in gut microbiota composition and function between captive ring-tailed lemurs (Lemur catta) in different zoos across the north–south demarcation line in China. Results revealed significant differences in gut microbiota composition between northern and southern groups. Alpha diversity indices were higher in the southern group (p < 0.05), while beta diversity analysis showed distinct clustering based on geographic location (p < 0.001). Bacteroidetes were more abundant in the northern group (49.22% vs. 28.44%), while Firmicutes predominated in the southern group (59.10% vs. 32.78%). Functional prediction analysis indicated higher levels of membrane transport and lipid metabolism pathways in the southern group, suggesting differences in nutrient absorption and energy metabolism. These findings suggest that geographic location and associated environmental factors significantly influence the gut microbiota of captive ring-tailed lemurs, even under similar dietary and husbandry conditions. Our study provides insights into the impact of geographic location on gut microbiota in captive primates, highlighting the importance of considering regional factors in zoo animal management and informing future strategies for optimizing the care and conservation of captive primates across different geographic regions.

Understanding diet–health linkages in endangered oriental storks (Ciconia boyciana) occupying non-traditional overwintering habitats is imperative for conservation prioritization. Integrated high-throughput sequencing and microscopic analyses revealed their food composition, gut microbiome profile, and critical associations between diet selection and health status. Dominant gut microbial phyla included Firmicutes (64.62%), Fusobacteriota (24.08%), and Bacteroidota (4.10%), with Clostridium_sensu_stricto_1 (21.93%), Paeniclostridium (14.21%), and Fusobacterium (12.58%) at genus level. Microscopic examination of fecal samples identified six plant species (three families, six genera), while sequencing detected five plant-derived and two animal-derived food families. Both methods confirmed Poaceae, Cannabaceae, and Apocynaceae; sequencing uniquely revealed Malvaceae and Leguminosae. There was a significant negative correlation between Cyprinidae and Bacteroidota (0.01 < p ≤ 0.05). Both diet composition and gut microbial structure of the Ciconia boyciana in this study reflect flexible adaptation in response to winter thermoregulation and local food availability, providing a scientific basis for evidence-based conservation of this endangered species as well as other ecologically similar species. This work offers practical guidance for habitat restoration and dietary supplementation in non-traditional wintering sites while informing conservation strategies for ecologically similar species. Due to the limited sample size, future efforts will expand sampling to more accurately characterize population-level dietary patterns and gut microbiota profiles, thereby strengthening conservation decision-making.

Understanding seasonal dietary shifts in reintroduced herbivores is essential for conservation, yet detailed patterns for Milu (Elaphurus davidianus) in wetland habitats remain underexplored. This study applied high-throughput sequencing to fecal samples collected across four seasons in Tianjin Qilihai Wetland, identifying 43 plant species from 24 families. Significant seasonal differences were detected in relative read abundance. At the family level, Poaceae dominated spring, significantly exceeding all other seasons; Asteraceae and Cyperaceae were highest in summer, with Cyperaceae also surpassing winter and spring; Amaranthaceae peaked in autumn, higher than spring and summer; and Celastraceae prevailed in winter. At the species level, Phragmites australis was overwhelmingly consumed in spring; Lactuca indica and Bolboschoenus planiculmis peaked in summer; Euonymus japonicus dominated winter; and Suaeda salsa was highest in autumn, exceeding spring. These compositional shifts reveal a strategic transition from a specialized diet focused on high-quality resources in spring–summer to a broad-spectrum diet including woody plants, legumes, and cultivated species in autumn–winter. Overall, Milu exhibit substantial dietary plasticity, a key trait underpinning reintroduction success, and our findings provide empirical evidence to guide adaptive forage management in wetland reserves.