A tangled history: patterns of major histocompatibility complex evolution in the African mole-rats (Family: Bathyergidae)

Phylogenetic trees based upon major histocompatibility complex (MHC) gene sequences, particularly those encompassing sites encoding the antigen recognition site, are often discordant with the species tree. It has been argued that the principal cause of such discordance is the presence of ancestrally derived polymorphisms persisting through speciation events as a consequence of selection. In the present study, we examine the evolution of the MHC class II DQα1 gene in an unusual family of hystricomorph rodents, the African mole-rats (Family: Bathyergidae). We show that there is a high level of trans-species polymorphism and that this is a result of positive selection. Furthermore, the major lineages of the gene tree are characterized by allelic motifs occurring in regions that coincide with the pocket domains of the putative antigen recognition site, a region that has been shown to be under positive selection in a number of MHC genes from a range of species. Finally, these alleles may have been retained for at least 48 million years. This is significantly older than the estimate for the equivalent primate locus and appears to be one of the oldest documented sets of MHC alleles. We suggest that these allelic motifs possess polymorphisms that have been immunologically important to African mole-rats over long periods of evolutionary history.  © 2007 The Linnean Society of London, Biological Journal of the Linnean Society , 2007, 91 , 493–503.     

Do host alternating aphids know which plant they are on?

Abstract.

• 1 To determine whether an aphid is ‘aware’ of which plant it is on, clones of a host alternating aphid, Cavariella aegopodii Scop., reared on its primary (Salix) or secondary (Daucus) host, were subjected to autumnal conditions.
• 2 Old clones produced males and egg laying females when exposed to autumnal conditions on the primary host but autumnal migrants and males when on the secondary host.
• 3 Unlike some other host alternating aphids, Cavariella did not have to spend a period on the secondary host or go through the spring migrant stage before producing sexuals.
• 4 The adaptive significance of a host alternating aphid being ‘aware’ of which host plant it is on is discussed in the light of these results.

     

Development of SSR markers and construction of a linkage map in jute

Jute is an important natural fibre crop, which is only second to cotton in its importance at the global level. It is mostly grown in Indian subcontinent and has been recently used for the development of genomics resources.We recently initiated a programme to develop simple sequence repeat markers and reported a set of 2469 SSR that were developed using four SSR-enriched libraries (Mir et al. 2009). In this communication, we report an additional set of 607 novel SSR in 393 SSR containing sequences. However, primers could be designed for only 417 potentially useful SSR. Polymorphism survey was carried out for 374 primer pairs using two parental genotypes (JRO 524 and PPO4) of a mapping population developed for fibre fineness; only 66 SSR were polymorphic. Owing to a low level of polymorphism between the parental genotypes and a high degree of segregation distortion in recombinant inbred lines, genotypic data of only 53 polymorphic SSR on the mapping population consisting of 120 RIL could be used for the construction of a linkage map; 36 SSR loci were mapped on six linkage groups that covered a total genetic distance of 784.3 cM. Hopefully, this map will be enriched with more SSR loci in future and will prove useful for identification of quantitative trait loci/genes for molecular breeding involving improvement of fibre fineness and other related traits in jute.     

Root Growth Inhibitors from Root Cap and Root Meristem of Zea mays L.

A micro-assay based on the growth inhibition of root segmentsof the seminal roots of Zea mays has been used to investigatethe root-growth-inhibiting substances in root caps and meristemsrespectively of the roots of Zea mays. This micro-assay is sensitiveto 50 pg of IAA or less. Paper chromatography of the acid fractionof methanolic extracts shows the presence of one main inhibitorin root caps and a different main inhibitor in root meristems.Neither is IAA, whose presence in meristems is sometimes indicatedby small inhibitions (or stimulations) at the characteristicRf of IAA. A Commelina leaf-epidermis assay shows the presenceof one stomata-closing ABA-like substance in root caps and onein meristems, one corresponding in Rf to the main root-growthinhibitor from the root cap. The implications of these findingsfor the geotropic responses of roots is briefly discussed.     

Potential of double-cropped rice ecology to conserve organic carbon under subtropical climate

Understanding the processes of soil organic carbon (SOC) accumulation or depletion under different management strategies is vital for maintaining soil health and curbing global warming. Using a 36-year-old fertility experiment under subtropical climate, we investigated the impact of long-term intensive rice–rice cropping system with different managements on the SOC stock. The mechanistic pathway of stabilization of the SOC into different pools, with a tentative C budgeting was also established. Biochemical composition of the organic residues involved, SOC pools of different oxidizability and methane (CH₄) emission were estimated for the experiment conducted using organic and inorganic sources of nutrients. Cultivation over the years caused a net decrease in SOC stocks but with balanced fertilization it increased. With increasing depth, the stock decreased on average, to the extent of 50%, 26% and 24% of the total at 0–0.2, 0.2–0.4 and 0.4–0.6 m, respectively. About 4.0% of the crop residues C incorporated into the soil were stabilized into SOC. This was further enhanced (1.6 times) by the application of compost. Carbon loss through CH₄ emission was very low (2.6% of the total). 'Summer fallow' had a positive significant influence on C loss from the system. As much as 29% of the compost C added to the soil was stabilized into SOC mostly in the less-labile or nonlabile recalcitrant pools preferentially in the surface layer of the soil. Large polyphenol and lignin contents of crop residues including compost, and the long period of soil submergence under rice cultivation might have conferred recalcitrant character to the SOC leading to its stabilization in nonlabile pools. This would result into an enrichment of the SOC stock and restriction to the gaseous C loading into the atmosphere.     

Origin and Development of Axillary Buds in Jute (Corchorus capsularis)

The bud initials are laid in the usual manner in the primordialmeristem in the case of branching plants of Corchorus capsularis.The non-branching character of some varieties is due to thedifferent structural organization of the shoot apex. In thenon-branching plants the absence of bud initials is associatedwith early vacuolation of the meristematic cells. Cases occurof sporadic development of a few axillary and extra-axillarybuds.