Historically, the use of cutting-edge molecular techniques to study immunological gene expression and related cellular pathways has been largely limited to model organisms. Few studies have been performed that quantify the molecular immunological responses of non-model species, especially in response to environmental factors, life-history events, or exposure to parasites. This dearth of information has largely occurred due to the lack of available non-model species-specific gene sequences and immunological reagents and also due to prohibitively expensive technology. However, with the rapid development of various sequencing and transcriptomic technologies, profiling the gene expression of non-model organisms has become possible. Technologies and concepts explored here include an overview of current technologies for quantifying gene expression, including: qPCR, multiplex branched DNA assays, microarrays, and profiling gene expression (RNA sequencing [RNA-Seq]) based on next-generation sequencing. Examples of the advancement of these technologies in non-model systems are discussed. Additionally, applications, limitations, and feasibility of the use of these methodologies in non-model systems to address questions in ecological immunology and disease-ecology are specifically addressed.

How regulatory changes of digestive and immune functions of the gut influence each other has not been sufficiently studied. We tested for simultaneous changes in the digestive physiology and mucosal immune function of the guts of White Leghorn cockerel chicks undergoing food restriction and realimentation. Chicks were assigned to 1 of 3 groups: control = fed ad libitum 7 to 17 d of age; restricted = feed restricted d 12 to 17 (at 2 restriction levels: 54 and 34% ad libitum); refed = feed restricted d 7 to 13 and then fed ad libitum d 14 to 17. Refed chicks exhibited 1 d of hyperphagy and an increase in apparent digestive efficiency following restriction (ANOVA, P < 0.001). Total small intestine mass and duodenal maltase activity differed among the groups in the order refed > control > restricted, as expected (ANOVA, P < 0.05 for both measures). In contrast, there were no significant treatment effects on our measures of gut immune structure and function, including bursa mass, spleen mass, and total IgA content of intestinal flush samples measured with standard ELISA techniques. The results of this study indicated that, during feed restriction and realimentation, some features of gut immune function are maintained unchanged in the face of regulatory changes that influence digestive functions.

Invasive species often display different patterns of parasite burden and virulence compared to their native counterparts. These differences may be the result of variability in host-parasite co-evolutionary relationships, the occurrence of novel host-parasite encounters, or possibly innate differences in physiological responses to infection between invasive and native hosts. Here we examine the adaptive, humoral immune responses of a resistant, native bird and a susceptible, invasive bird to an arbovirus (Buggy Creek virus; Togaviridae: Alphavirus) and its ectoparasitic arthropod vector (the swallow bug; Oeciacus vicarius). Swallow bugs parasitize the native, colonially nesting cliff swallow (Petrochelidon pyrrhonota) and the introduced house sparrow (Passer domesticus) that occupies nests in cliff swallow colonies. We measured levels of BCRV-specific and swallow bug-specific IgY levels before nesting (prior to swallow bug exposure) and after nesting (after swallow bug exposure) in house sparrows and cliff swallows in western Nebraska. Levels of BCRV-specific IgY increased significantly following nesting in the house sparrow but not in the cliff swallow. Additionally, house sparrows displayed consistently higher levels of swallow bug-specific antibodies both before and after nesting compared to cliff swallows. The higher levels of BCRV and swallow bug specific antibodies detected in house sparrows may be reflective of significant differences in both antiviral and anti-ectoparasite immune responses that exist between these two avian species. To our knowledge, this is the first study to compare the macro- and microparasite-specific immune responses of an invasive and a native avian host exposed to the same parasites.

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