The genome sequence of Atlantic cod reveals a unique immune system

Atlantic cod (Gadus morhua) is a large, cold-adapted teleost that sustains long-standing commercial fisheries and incipient aquaculture. Here we present the genome sequence of Atlantic cod, showing evidence for complex thermal adaptations in its haemoglobin gene cluster and an unusual immune architecture compared to other sequenced vertebrates. The genome assembly was obtained exclusively by 454 sequencing of shotgun and paired-end libraries, and automated annotation identified 22,154 genes. The major histocompatibility complex (MHC)?II is a conserved feature of the adaptive immune system of jawed vertebrates, but we show that Atlantic cod has lost the genes for MHC?II, CD4 and invariant chain (Ii) that are essential for the function of this pathway. Nevertheless, Atlantic cod is not exceptionally susceptible to disease under natural conditions. We find a highly expanded number of MHC?I genes and a unique composition of its Toll-like receptor (TLR) families. This indicates how the Atlantic cod immune system has evolved compensatory mechanisms in both adaptive and innate immunity in the absence of MHC?II. These observations affect fundamental assumptions about the evolution of the adaptive immune system and its components in vertebrates

Evolution of the immune system influences speciation rates in teleost fishes

Teleost fishes constitute the most species-rich vertebrate clade and exhibit extensive genetic and phenotypic variation, including diverse immune defense strategies. The genomic basis of a particularly aberrant strategy is exemplified by Atlantic cod, in which a loss of major histocompatibility complex (MHC) II functionality coincides with a marked expansion of MHC I genes. Through low-coverage genome sequencing (9-39×), assembly and comparative analyses for 66 teleost species, we show here that MHC II is missing in the entire Gadiformes lineage and thus was lost once in their common ancestor. In contrast, we find that MHC I gene expansions have occurred multiple times, both inside and outside this clade. Moreover, we identify an association between high MHC I copy number and elevated speciation rates using trait-dependent diversification models. Our results extend current understanding of the plasticity of the adaptive immune system and suggest an important role for immune-related genes in animal diversification

Petrography and stable isotopic variations in Dalmiapuram Formation of Cauvery Basin, South India: implication on OAE1d

Petrography, carbon and oxygen isotopic study was carried out to interpret isotopic variations on the predominant carbonate sequence of the Dalmiapuram Formation of the Cauvery Basin, South India. The common petrographic types identified in the Dalmiapuram Formation range from wackestone to boundstone. The gray shale and limestone members show large variations in d<sup>13</sup>C and d<sup>18</sup>O values (Gray shale member: +1.44 to +2.40 ‰ VPDB, -3.05 to -5.92 ‰ VPDB, respectively; Limestone member: -6.07 to +2.93 ‰ VPDB; -7.08 to -0.39 ‰ VPDB; respectively). In the present study, the carbon and oxygen values are not correlated, which supports the fact that these limestones retain their primary isotopic signatures. In carbon isotope curve, one negative shift is identified in the gray shale member and a positive isotopic excursion is detected in the coral algal limestone (CAL). The observed positive isotopic excursion in the lower part of the CAL correlates with OAE1d and suggests the global nature of the late Albian OAE1d in the Cauvery Basin