Molecular epidemiology of Leptospira spp. among wild mammals and a dog in Amami Oshima Island, Japan

Leptospirosis is a worldwide zoonosis caused by the pathogenic Leptospira spp. Canine and human leptospirosis sometimes occur on Amami Oshima Island, located in the Nansei Archipelago, southwestern Japan; however, information on the causative Leptospira spp. on this island is quite limited. This study aimed to investigate the molecular and serological characteristics of Leptospira spp. isolated from wild animals and a dog in Amami Oshima Island. We obtained seven Leptospira strains by culturing kidney tissues of wild animals, such as black rats (2), wild boars (3), and rabbit (1) as well as blood from a symptomatic dog. Using flaB sequencing and microscopic agglutination test with antisera for 18 serovars, the isolates were identified as Leptospira borgpetersenii serogroups Javanica (black rat), L. interrogans serogroup Australis (black rat and dog), and L. interrogans serogroup Hebdomadis (wild boar and rabbit). The sequence type (ST) of L. borgpetersenii serogroup Javanica was determined to be ST143 via multilocus sequence typing (MLST) using seven housekeeping genes. For L. interrogans, MLST and multiple-locus variable-tandem repeat analysis (MLVA) revealed identical ST and MLVA types in rat and canine isolates, whereas two STs and MLVA types were identified in wild boar isolates. The STs and MLVA types of rabbit and one of the wild boars were identical. Bacterial culture and flaB-nested polymerase chain reaction demonstrated a high rate of Leptospira infection in wild boars (58.3%, 7/12), whereas Leptospira spp. were detected in 4.8% of black rats (2/42). This study revealed diverse Leptospira genotype and serotype maintenance in wild mammals on Amami Oshima Island. MLST and MLVA indicated that black rats were a source of canine infection. Wild boars carry L. interrogans and are considered an important maintenance host because antibodies against serogroup Hebdomadis were detected in human and canine leptospirosis patients on this island.

Palaeogenomic analysis of black rat (Rattus rattus) reveals multiple European introductions associated with human economic history

The distribution of the black rat (Rattus rattus) has been heavily influenced by its association with humans. The dispersal history of this non-native commensal rodent across Europe, however, remains poorly understood, and different introductions may have occurred during the Roman and medieval periods. Here, in order to reconstruct the population history of European black rats, we generated a de novo genome assembly of the black rat, 67 ancient black rat mitogenomes and 36 ancient nuclear genomes from sites spanning the 1st-17th centuries CE in Europe and North Africa. Analyses of mitochondrial DNA confirm that black rats were introduced into the Mediterranean and Europe from Southwest Asia. Genomic analyses of the ancient rats reveal a population turnover in temperate Europe between the 6th and 10th centuries CE, coincident with an archaeologically attested decline in the black rat population. The near disappearance and re-emergence of black rats in Europe may have been the result of the breakdown of the Roman Empire, the First Plague Pandemic, and/or post-Roman climatic cooling.

Conservation status and biology of the Ultramarine Lorikeet Vini ultramarina in the Marquesas Islands, French Polynesia

Summary Classified as Critically Endangered, the Ultramarine Lorikeet Vini ultramarina is one of the world’s most threatened lorikeet species. Endemic to the Marquesas Islands in French Polynesia, the species was formerly distributed over most islands in the archipelago, but is today found primarily on the island of Ua Huka, its range having contracted significantly in recent decades. Habitat alteration and loss, and over-exploitation of natural resources, are cited as impacting the Ultramarine Lorikeet, but the influence of introduced black rats Rattus rattus as predators has been implicated as the primary threat to the species. To assess population status and document aspects of the species biology, including habitat preferences and diet, we conducted the first systematic surveys of the species during two independent surveys spaced seven years apart (2002 and 2009). Population estimates of 2,011 ± 284 (in 2002) and 1,922 (in 2009) individuals on Ua Huka suggest the population was relatively healthy and stable between these periods. However, surveys and searches of other islands in the species’ contemporary range, where black rats occur, either failed to document the species or noted very few individuals. These findings highlight the critical importance of Ua Huka as a rat-free refuge and the value of our surveys as baseline estimates of the population status of the species. We discuss the conservation implications of our findings and propose recommendations to secure the species’ future survival.