Dynamic control of positional information in the early Drosophila embryo

Morphogen gradients contribute to pattern formation by determining positional information in morphogenetic fields. Interpretation of positional information is thought to rely on direct, concentration-threshold-dependent mechanisms for establishing multiple differential domains of target gene expression. In Drosophila, maternal gradients establish the initial position of boundaries for zygotic gap gene expression, which in turn convey positional information to pair-rule and segment-polarity genes, the latter forming a segmental pre-pattern by the onset of gastrulation. Here we report, on the basis of quantitative gene expression data, substantial anterior shifts in the position of gap domains after their initial establishment. Using a data-driven mathematical modelling approach, we show that these shifts are based on a regulatory mechanism that relies on asymmetric gap-gap cross-repression and does not require the diffusion of gap proteins. Our analysis implies that the threshold-dependent interpretation of maternal morphogen concentration is not sufficient to determine shifting gap domain boundary positions, and suggests that establishing and interpreting positional information are not independent processes in the Drosophila blastoderm.     

A new orang-utan relative from the Late Miocene of Thailand

The fossil record of the living great apes is poor. New fossils from undocumented areas, particularly the equatorial forested habitats of extant hominoids, are therefore crucial for understanding their origins and evolution. Two main competing hypotheses have been proposed for orang-utan origins: dental similarities support an origin from Lufengpithecus, a South Chinese and Thai Middle Miocene hominoid; facial and palatal similarities support an origin from Sivapithecus, a Miocene hominoid from the Siwaliks of Indo-Pakistan. However, materials other than teeth and faces do not support these hypotheses. Here we describe the lower jaw of a new hominoid from the Late Miocene of Thailand, Khoratpithecus piriyai gen. et sp. nov., which shares unique derived characters with orang-utans and supports a hypothesis of closer relationships with orang-utans than other known Miocene hominoids. It can therefore be considered as the closest known relative of orang-utans. Ancestors of this great ape were therefore evolving in Thailand under tropical conditions similar to those of today, in contrast with Southern China and Pakistan, where temperate or more seasonal climates appeared during the Late Miocene.     

Mutations in INVS encoding inversin cause nephronophthisis type 2, linking renal cystic disease to the function of primary cilia and left-right axis determination

Nephronophthisis (NPHP), an autosomal recessive cystic kidney disease, leads to chronic renal failure in children. The genes mutated in NPHP1 and NPHP4 have been identified, and a gene locus associated with infantile nephronophthisis (NPHP2) was mapped. The kidney phenotype of NPHP2 combines clinical features of NPHP and polycystic kidney disease (PKD). Here, we identify inversin (INVS) as the gene mutated in NPHP2 with and without situs inversus. We show molecular interaction of inversin with nephrocystin, the product of the gene mutated in NPHP1 and interaction of nephrocystin with beta-tubulin, a main component of primary cilia. We show that nephrocystin, inversin and beta-tubulin colocalize to primary cilia of renal tubular cells. Furthermore, we produce a PKD-like renal cystic phenotype and randomization of heart looping by knockdown of invs expression in zebrafish. The interaction and colocalization in cilia of inversin, nephrocystin and beta-tubulin connect pathogenetic aspects of NPHP to PKD, to primary cilia function and to left-right axis determination.     

A genome-wide association study identifies colorectal cancer susceptibility loci on chromosomes 10p14 and 8q23.3

To identify colorectal cancer (CRC) susceptibility alleles, we conducted a genome-wide association study. In phase 1, we genotyped 550,163 tagSNPs in 940 familial colorectal tumor cases (627 CRC, 313 high-risk adenoma) and 965 controls. In phase 2, we genotyped 42,708 selected SNPs in 2,873 CRC cases and 2,871 controls. In phase 3, we evaluated 11 SNPs showing association at P < 10(-4) in a joint analysis of phases 1 and 2 in 4,287 CRC cases and 3,743 controls. Two SNPs were taken forward to phase 4 genotyping (10,731 CRC cases and 10,961 controls from eight centers). In addition to the previously reported 8q24, 15q13 and 18q21 CRC risk loci, we identified two previously unreported associations: rs10795668, located at 10p14 (P = 2.5 x 10(-13) overall; P = 6.9 x 10(-12) replication), and rs16892766, at 8q23.3 (P = 3.3 x 10(-18) overall; P = 9.6 x 10(-17) replication), which tags a plausible causative gene, EIF3H. These data provide further evidence for the 'common-disease common-variant' model of CRC predisposition.     

Nephrocystin-5, a ciliary IQ domain protein, is mutated in Senior-Loken syndrome and interacts with RPGR and calmodulin

Nephronophthisis (NPHP) is the most frequent genetic cause of chronic renal failure in children. Identification of four genes mutated in NPHP subtypes 1-4 (refs. 4-9) has linked the pathogenesis of NPHP to ciliary functions. Ten percent of affected individuals have retinitis pigmentosa, constituting the renal-retinal Senior-Loken syndrome (SLSN). Here we identify, by positional cloning, mutations in an evolutionarily conserved gene, IQCB1 (also called NPHP5), as the most frequent cause of SLSN. IQCB1 encodes an IQ-domain protein, nephrocystin-5. All individuals with IQCB1 mutations have retinitis pigmentosa. Hence, we examined the interaction of nephrocystin-5 with RPGR (retinitis pigmentosa GTPase regulator), which is expressed in photoreceptor cilia and associated with 10-20% of retinitis pigmentosa. We show that nephrocystin-5, RPGR and calmodulin can be coimmunoprecipitated from retinal extracts, and that these proteins localize to connecting cilia of photoreceptors and to primary cilia of renal epithelial cells. Our studies emphasize the central role of ciliary dysfunction in the pathogenesis of SLSN.     

Neue Gesichtspunkte zum 5. Buch Euklids

Summary The author's purpose is to read the main work of Euclid with modern eyes and to find out what knowledge a mathematician of today, familiar with the works of V. D. Waerden and Bourbaki, can gain by studying Euclid's theory of magnitudes, and what new insight into Greek mathematics occupation with this subject can provide.The task is to analyse and to axiomatize by modern means (i) in a narrower sense Book V. of the Elements, i.e. the theory of proportion of Eudoxus, (ii) in a wider sense the whole sphere of magnitudes which Euclid applies in his Elements. This procedure furnishes a clear picture of the inherent structure of his work, thereby making visible specific characteristics of Greek mathematics.After a clarification of the preconditions and a short survey of the historical development of the theory of proportions (Part I of this work), an exact analysis of the definitions and propositions of Book V. of the Elements is carried out in Part II. This is done word by word. The author applies his own system of axioms, set up in close accordance with Euclid, which permits one to deduce all definitions and propositions of Euclid's theory of magnitudes (especially those of Books V. and VI.).In this way gaps and tacit assumptions in the work become clearly visible; above all, the logical structure of the system of magnitudes given by Euclid becomes evident: not ratio — like something sui generis — is the governing concept of Book V., but magnitudes and their relation of having a ratio form the base of the theory of proportions. These magnitudes represent a well defined structure, a so-called Eudoxic Semigroup with the numbers as operators; it can easily be imbedded in a general theory of magnitudes equally applicable to geometry and physics.The transition to ratios — a step not executed by Euclid — is examined in Part III; it turns out to be particularly unwieldy. An elegant way opens up by interpreting proportion as a mapping of totally ordered semigroups. When closely examined, this mapping proves to be an isomorphism, thus suggesting the application of the modern theory of homomorphism. This theory permits a treatment of the theory of proportions as developed by Eudoxus and Euclid which is hardly surpassable in brevity and elegance in spite of its close affinity to Euclid. The generalization to a classically founded theory of magnitudes is now self-evident.

---

---

Vorgelegt von J. E. Hofmann     

A physical map of the mouse genome

A physical map of a genome is an essential guide for navigation, allowing the location of any gene or other landmark in the chromosomal DNA. We have constructed a physical map of the mouse genome that contains 296 contigs of overlapping bacterial clones and 16,992 unique markers. The mouse contigs were aligned to the human genome sequence on the basis of 51,486 homology matches, thus enabling use of the conserved synteny (correspondence between chromosome blocks) of the two genomes to accelerate construction of the mouse map. The map provides a framework for assembly of whole-genome shotgun sequence data, and a tile path of clones for generation of the reference sequence. Definition of the human-mouse alignment at this level of resolution enables identification of a mouse clone that corresponds to almost any position in the human genome. The human sequence may be used to facilitate construction of other mammalian genome maps using the same strategy.     

Earliest known proboscidean from early Eocene of north-west Africa

The earliest known proboscidean remains have now been found at a new early Eocene locality at Brezina in southern Algeria (El Kohol). These new finds, represented by complete skulls and postcranial material, show several unexpected derived characters shared with the modern representatives of the Elephantoidea and the Deinotheriidae, suggesting close phylogenetic affinities and demonstrating also the great antiquity of the differentiation of modern proboscideans in Africa. These remains have been dated by associated charophyte flora and vertebrate remains which constitute the oldest known vertebrate community from the African Eocene.